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Supplementary materials to a paper "A large-scale, consortium-based genomewide association study of asthma"

October 2014

October 2014

Authors:

Ivo Gut

Centro Nacional de Análisis Genómico de Barcelona

Florence Demenais

French Institute of Health and Medical Research

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Supplementary Appendix

This appendix has been provided by the authors to give readers additional information about their work.

Supplement to: Moffatt MF, Gut IG, Demenais F, et al. A large-scale, consortium-based genomewide association

study of asthma. N Engl J Med 2010;363:1211-21.

A GABRIEL Consortium Large-Scale Genome-Wide Association Study of Asthma

Miriam F. Moffatt, D.Phil.1,2,*, Ivo G. Gut, Ph.D.2,3,*, Florence Demenais, M.D.2,4,5,6,7, *, David P.

Strachan, M.D.2,8,9, , Emmanuelle Bouzigon, M.D., Ph.D.2,4,5,6,7, Simon Heath, Ph.D. 3, Ashish

Kumar, M.Sc.2,10, Peter Burney, M.D.1,2,11,12, Debbie Jarvis, M.D.1,2,11,12, Matthias Wjst,

M.D.12,13,14, Manolis Kogevinas, M.D., Ph.D.12,15,16,17,18, Rain Jogi, M.D., Ph.D.12,19, Christer

Janson, M.D.12,20, Karl A. Franklin, M.D., Ph.D.12,21, Ernst Omenaas, M.D., Ph.D.12,22,23, Benedicte

Leynaert, Ph.D.12,24,25, Isabelle Pin, M.D.7,12,26,27,28, Joachim Heinrich, Ph.D.12,29, Nicole M. Probst-

Hensch, Ph.D.2,12,30,31,32,33, Josep M. Anto, M.D., Ph.D.12,15,16,17,34, Jordi Sunyer, M.D.,

Ph.D.12,15,16,17,34, Jose-Antonio Maldonado, M.D.12,35,36, Jesus Martinez-Moratalla, M.D.12,36,

Isabel Urrutia, M.D., Ph.D.12,37, Felix Payo, M.D.12,38, Francine Kauffmann, M.D.2,7,39,40, Marie-

Hélène Dizier, Ph.D.2,4,5,6,7, Valérie Siroux, Ph.D.2,7,27,28, Andrzej Boznanski, M.D., Ph.D.41,42,

Charlotte Braun-Fahrländer, M.D.2,30,31,42, Jon Genuneit2,42, 43, Juergen Glas, M.D.42, 44, Elisabeth

Horak, M.D.42, 45, Michael Kabesch, M.D.2,42,46, Sreekumar G. Pillai, Ph.D.2,47,48, Peter J. Helms,

M.B.B.S., Ph.D.48,49, Karin Carlsen, M.D., Ph.D.48,50, Kai-Håkon Carlsen, M.D., Ph.D. 48,50, Jorrit

Gerritsen, M.D., Ph.D.48,51, Michael Silverman, M.D., F.R.C.P.C.H.48,52, Peter Sly, M.D., F.R.A.C.P.,

D.S.48,53, John Tsanakas, M.D., Ph.D.48,54, Andrea Von Berg, M.D.48,55, Moira Whyte, Ph.D.,

F.R.C.P., F.Med.Sci.48,56, Malcolm Blumenthal, M.D.48,57, Medea Imboden, Ph.D.2,30,31,32,33,

Thierry Rochat, M.D.33,58, Gian Andri Thun, M.S.30,31,32,33, Margaret W. Gerbase, M.D., Ph.D.33,58,

Ivan Curjuric, M.D.30,31,32,33, Jean-Michel Gaspoz, M.D.33,59, Lee-Jane S. Liu, Sc.D.30,31,33, Inge M.

Wouters, Ph.D.2,60,61, Torben Sigsgaard, M.D., Ph.D.2,61,62, Dick Heederik, Ph.D.2,60,61, Ioannis

Basinas, M.Sc.60,61,62, Vivi Schlunssen, M.D., Ph.D.61,62, Øyvind Omland, M.D., Ph.D.61,62,63, Paul

Cullinan, M.D., Ph.D.1,2,61, Roel Vermeulen, Ph.D.60,61, John Henderson, M.D.2,64,65, Raquel

Granell, Ph.D.2,65,66, Wendy L. McArdle, Ph.D.9,65,66, George Davey Smith, M.D.65,66,67, Alan L.

James, M.D., F.R.A.C.P.2, 68,69,70, Jennie Hui, Ph.D.70,71, Lyle J. Palmer, Ph.D.2, 70,72, John Beilby,

Ph.D., F.A.C.B.70,73, A.William Musk, Ph.D., F.R.A.C.P.2,70,74,75, Catherine Laprise, Ph.D.2,76,77,78,

Thomas J. Hudson, M.D.2,78,79, Mathieu Lemire, Ph.D.78,79, Denise Daley, Ph.D.2,80,81, Allan

Becker, M.D.81,82, Moira Chan-Yeung, M.D.81,83, Andrew Sandford, Ph.D.80,81, Anita L. Kozyrskyj,

Ph.D.81,82,84,85, Peter Paré, M.D.2,80,81, Alexander Ferguson, M.D.81,86, Helen Dimich-Ward,

Ph.D.81,83, Wade T. Watson, M.D.81,82, Maxim B. Freidin, Ph.D.2,87,88, Elena Iu. Bragina, Ph.D.87,88,

Ivan A. Deev, M.D., Ph.D.88,89, Eugenia V. Deeva, M.D., Ph.D.88,89, Olga S. Kobyakova, M.D.,

Ph.D.88,90, Valery P. Puzyrev, M.D., Ph.D.2,87,88, Ludmila M. Ogorodova, M.D., Ph.D.2,88,89, Elza K.

Khusnutdinova, Ph.D.2,91,92, Alexandra S. Karunas, M.D., Ph.D.2,91,92, Yuliya Y. Fedorova,

Ph.D.91,92, Ian P. Hall, D.M., F.R.C.P.93,94, Ian Sayers, B.Sc., Ph.D. 93,94, Martin D. Tobin, Ph.D. 94,95,

F.F.P.H., Yize I. Wan, B.MedSci. 93,94, Liam G. Heaney, M.D., M.R.C.P. 94,96, Basima A.H. Al-

Momani, B.Sc., M.Sc. 94,97, Adel H. Mansur, Ph.D., F.R.C.P. 94,98, Sarah Manney, Ph.D. 94,98, Neil C.

Thomson, M.D., F.R.C.P. 94,99, Rekha Chaudhuri, M.D. 94,99, Christopher E. Brightling, Ph.D.,

M.R.C.P. 2,94,100,101, Mona Bafadhel, M.B.Ch.B. 94,100,101, Amisha Singapuri, B.Sc. 94,100,101, Robert

Niven, M.D. F.R.C.P. 94,102, Angela Simpson, M.D., Ph.D. 94,102, John W. Holloway, B.Sc.,

Ph.D94,103, Peter H. Howarth, D.M., F.R.C.P. 94,103,104, Alexey V. Polonikov, M.D., Ph.D.2,105,106,

Vladimir P. Ivanov, M.D., Ph.D.105,106, Maria A. Solodilova, Ph.D.105,106, Erik Melén, M.D.,

Ph.D.2,107,108,109, Göran Pershagen, M.D., Ph. D. 2,107,109, Anna Bergström, Ph.D. 107,109, Inger Kull,

Ph.D. 107,109, Fredrik Nyberg, M.D., Ph.D.107,109,110, Magnus Wickman, M.D., Ph.D.107,109,111, Cilla

Söderhäll, Ph.D.109,112, Juha Kere, M.D., Ph.D.109,112, Dirkje S. Postma, M.D., Ph.D.2,113,114, Marjan

Kerkhof, M.D., Ph.D.114,115, Bert Brunekreef, Ph.D.60,114,116, Henriette A. Smit, Ph.D.114,116, Johan

C. de Jongste, M.D., Ph.D.114,117, Alet Wijga, Ph.D.114,118, R. C. Aalberse, Ph.D.114,119, Maarten O.

A GABRIEL Consortium Large-Scale Genome-Wide Association Study of Asthma

Hoekstra, M.D., Ph.D.114,120, Gerard H. Koppelman, M.D., Ph.D.2,114,121, Aristea Binia, M.Sc.1,101,

Kian Fan Chung, M.D., D.Sc. 1,2,101,122,Pankaj Bhavsar, Ph.D. 1,101, Florence Chow, R.N. 2,101,122,

Patricia Macedo, M.B.B.S.1,101,122, Andrew Menzies-Gow, M.B.B.S., Ph.D.1,101,122, Nicole van

Stiphout, R.S.C.N., R.N2,101,123, Andrew Bush, M.D., F.R.C.P., F.R.C.P.C.H., 1,2,101,123, Young-Ae Lee,

M.D.2,124,125,126, Jorge Esparza-Gordillo, Ph.D.124,125,126, Renate Nickel, M.D.124,126, Ulrich Wahn,

M.D.124,126, Susanne Lau, M.D.124,126, Ingo Marenholz, Ph.D.124,125,126, Tari Haahtela, M.D.,

Ph.D.2,127,128, Leena von Hertzen, Ph.D.2,127,128, Pekka Jousilahti, M.D., Ph.D.128,129, Tiina

Laatikainen, M.D., Ph.D.128,129, Mika J. Mäkelä, M.D., Ph.D.127,128, Erkki Vartiainen, M.D.,

Ph.D.128,129, Tarja Laitinen, M.D., Ph.D.2,128,130, David J. Balding, B.Math., D.Phil.2,131, John F.

Peden, Ph.D.2,10, Eve Corda, M.Sc.4,5,7, Doris Lechner, Dipl.3, Cèline Besse, D.E.S.S. 3, Diana

Zelenika, Ph.D.3, Anne Boland, Ph.D. 3, Delphine Bacq, M.Sc.3, Stephanie Demonchy, M.Sc. 3,

Helene Blanche, Ph.D.5, Yoichiro Kamatani, M.D., Ph.D.5, Erika von Mutius, M.D., M.Sc.2,42,132,

Martin Farrall, F.R.C.Path.2,10, Mark Lathrop, Ph.D. 2,3,5, William O.C.M. Cookson, M.D., D.Phil1,2.

* Equal first authors

1National Heart and Lung Institute (NHLI), Imperial College, London, UK. 2Member of the

GABRIEL Consortium. 3Commissariat à L’Energie Atomique, Institut de Génomique, Centre

National de Génotypage, Evry, France. 4Inserm, Unité 946, Fondation Jean-Dausset- Centre

d’Etude du Polymorphisme Humain (CEPH), Paris, France. 5Fondation Jean Dausset-CEPH, Paris,

France. 6Université Paris Diderot, Paris 7, Institut Universitaire d’Hématologie, Paris, France.

7Epidemiological study on the Genetics and Environment of Asthma (EGEA) Investigator.

8Division of Community Health Sciences, St George’s, University of London, UK. 9British 1958

Birth Cohort (B58C) Investigator. 10Wellcome Trust Centre for Human Genetics, University of

Oxford, Oxford, UK. 11Respiratory Epidemiology and Public Health, NHLI, Imperial College,

London, UK. 12European Community Respiratory Health Survey (ECRHS) Investigator.

13Institute of Lung Biology and Disease, Helmholtz Zentrum, Munich, Germany. 14German

Research Centre for Environmental Health (GmbH), Neuherberg, Germany. 15Centre for

Research in Environmental Epidemiology (CREAL), Barcelona, Spain. 16Municipal Institute of

Medical Research (IMIM-Hospital del Mar), Barcelona, Spain. 17CIBER Epidemiologia y Salud

Pública (CIBERESP), Spain. 18National School of Public Health, Athens, Greece. 19Tartu

University Hospital, Lung Clinic, Tartu, Estonia. 20Respiratory Medicine and Allergology,

University of Uppsala, Uppsala, Sweden. 21Department of Surgery, Umeå University, Umeå,

Sweden. 22Institute of Medicine, University of Bergen, Bergen, Norway. 23Centre for Clinical

Research, Haukeland University Hospital, Bergen, Norway. 24Inserm, Unité 700, Paris, France.

25Université Paris Diderot, Paris, France. 26Centre Hospitalier Universitaire, Grenoble, France.

27Inserm, Unité 823, Grenoble, France. 28Université Joseph Fourier, Grenoble, France.

29Helmholtz Zentrum Munich Institute of Epidemiology, Munich, Germany. 30Swiss Tropical and

Public Health Institute, Basel, Switzerland. 31University of Basel, Basel, Switzerland.

32Department of Chronic Disease Epidemiology, Institute of Social and Preventive Medicine,

University of Zürich, Switzerland. 33Swiss study on Air Pollution and Lung Disease In Adults

(SAPALDIA) Investigator. 34Departament de Ciències Experimentals i de la Salut, Universitat

Pompeu Fabra (UPF), Barcelona, Spain. 35Servicio de Neumología, Hospital Juan Ramón

Jiménez, Huelva, Spain. 36Servicio de Neumología, Hospital General Universitario de Albacete,

Albacete, Spain. 37Pneumology Service, Galdakao Hospital, Galdakao, Bizkaia, Spain. 38Servicio

A GABRIEL Consortium Large-Scale Genome-Wide Association Study of Asthma

de Neumología, Hospital General de Asturias, Oviedo, Asturias, Spain. 39Inserm, Unité 780,

Villejuif, France. 40Université Paris-Sud, IFR69, Villejuif, France. 411st Department of Paediatrics,

Allergology and Cardiology, Wroclaw Medical University, Poland. 42GABRIEL Advanced Surveys

(GABRIEL AS) Investigator. 43Institute of Epidemiology, Ulm University, Germany.

44Department of Preventive Dentistry and Periodontology University of Munich, Germany, and

Department of Human Genetics, RWTH Aachen, Aachen, Germany. 45Department of Pediatrics,

Pediatric Pulmonology, Innsbruck Medical University, Austria. 46Centre for Paediatrics and

Adolescent Medicine, Clinic for Paediatric Pneumology and Neonatology, Hannover Medical

School, Germany. 47Genetics, GlaxoSmithKline R & D, Research Triangle Park, NC, USA (current

address Pharmaceutical Exploratory Development, Roche Pharmaceuticals, Nutley, NJ, USA).

48Genetics of Asthma International Network (GAIN) Investigator. 49University of Aberdeen,

Royal Aberdeen Children’s Hospital, Aberdeen, UK. 50Department of Paediatrics, Oslo

University Hospital and Faculty of Medicine, University of Oslo, Oslo, Norway. 51Beatrix

Children’s Hospital, University Medical Center Groningen, University of Groningen, Groningen,

the Netherlands. 52Division of Child Health, University of Leicester, Leicester, UK. 53Centre for

Child Health Research, University of Western Australia, Perth, Western Australia. 54Pediatric

Pulmonology, Aristotle University of Thessaloniki, Greece. 55Abt. Fuer Kinderheilkunde

Foschungsinstitut zur Praevention von Allergien und Atemwegserkrankungen im Kindesalter,

Wesel, Germany. 56Academic Unit of Respiratory Medicine, University of Sheffield, Sheffield,

UK. 57Department of Medicine, University of Minnesota, MN. USA (Progenitor Collection).

58Division of Pulmonary Medicine, University Hospitals of Geneva, Switzerland. 59Division of

Community Medicine and Primary Care, University Hospitals of Geneva, Switzerland. 60Institute

for Risk Assessment Sciences (IRAS), University of Utrecht, Utrecht, the Netherlands. 61Industrial

Cohorts Research Group Investigator. 62Department of Environmental and Occupational

Medicine, School of Public Health, University of Aarhus, Bartolin Allé 2, Building 1260, 8000

Aarhus C, Denmark. 63Aalborg Hospital, Aarhus University Hospital, Department of

Occupational Health, Havrevangen 1, 9000 Aalborg, Denmark. 64Department of Community-

based Medicine, University of Bristol, Bristol, UK. 65Avon Longitudinal Study of Parents and

Children (ALSPAC) Investigator. 66Department of Medicine, University of Bristol, Bristol, UK.

67MRC Centre for Causal Analysis in Translational Epidemiology (CAiTE), University of Bristol,

Bristol, UK. 68West Australian Sleep Disorders Research Institute, Department of Pulmonary

Physiology, Sir Charles Gairdner Hospital, Western Australia. 69School of Medicine and

Pharmacology, University of Western Australia, Western Australia. 70The Busselton Health

Study (BUSSELTON) Investigator. 71Molecular Genetics, PathWest Laboratory Medicine,

Western Australia. 72Centre for Genetic Epidemiology and Biostatistics, University of Western

Australia, Western Australia. 73Biochemistry, PathWest Laboratory Medicine, Western

Australia. 74Department of Respiratory Medicine, Sir Charles Gairdner Hospital, Western

Australia. 75School of Population Health, University of Western Australia, Western Australia.

76Community Genomic Medicine Centre, University of Montreal, Chicoutimi University Hospital,

Chicoutimi, Canada. 77Université due Québec à Chicoutimi, Chicoutimi, Canada. 78Saguenay-

Lac-Saint-Jean (SLSJ) Familial Collection Investigator. 79Ontario Institute for Cancer Research,

Toronto, Canada. 80James Hogg iCAPTURE Center, University of British Columbia, Vancouver,

BC, Canada. 81Canadian Childhood Cohorts: Canadian Asthma Primary Prevention Study

(CAPPS) & Study of Asthma Genes and Environment (SAGE) Investigator. 82Department of

A GABRIEL Consortium Large-Scale Genome-Wide Association Study of Asthma

Pediatrics and Child Health, University of Manitoba, Winnipeg, Manitoba, Canada.

83Occupational and Environmental Lung Disease Unit, University of British Colombia,

Vancouver, BC, Canada. 84Department of Pediatrics, Faculty of Medicine and Dentistry,

University of Alberta and School of Public Health, University of Alberta, Edmonton, Canada.

85Department of Community Health Sciences, Faculty of Medicine, University of Manitoba,

Winnipeg, Manitoba, Canada. 86Division of Allergy, Department of Pediatrics, University of

British Columbia, Vancouver, BC, Canada. 87Population Genetics Laboratory, Research Institute

of Medical Genetics of the Siberian Branch of Russian Academy of Medical Sciences, 634050

Tomsk, Russian Federation. 88TOMSK Study Investigator. 89Department of Faculty Paediatrics,

Siberian State Medical University, 634050 Tomsk, Russian Federation. 90General Doctor

Practice Department, Siberian State Medical University, 634050 Tomsk, Russian Federation.

91Institute of Biochemistry and Genetics, UFA Scientific Centre, Russian Academy of Sciences,

450054, Ufa, Prospect Oktyabrya 71. 92UFA Study Investigator. 93Division of Therapeutics and

Molecular Medicine, Nottingham Respiratory Biomedical Research Unit, Queen’s Medical

Centre, Nottingham, UK. 94AUGOSA Study Investigator. 95Department of Health Sciences,

University of Leicester, Leicester, UK. 96Centre for Infection and Immunity, Queen’s University

of Belfast, Belfast, Northern Ireland UK. 97School of Pharmacy, Queen’s University of Belfast,

Belfast, Northern Ireland UK. 98Respiratory Medicine, Birmingham Heartlands Hospital and

University of Birmingham, Birmingham, UK. 99Respiratory Medicine Section, Division of

Immunology, Infection and Inflammation, University of Glasgow, Glasgow UK. 100Institute for

Lung Health, University of Leicester, Glenfield Hospital, Leicester, UK. 101SEVERE ASTHMA

COHORTS Investigator. 102The University of Manchester, Manchester Academic Health Science

Centre, NIHR Translational Research Facility in Respiratory Medicine, Manchester, UK.

103Division of Human Genetics and Division of Infection, Inflammation and Immunity, University

of Southampton School of Medicine, Southampton, UK. 104Southampton NIHR Respiratory

Biomedical Research Unit, University of Southampton School of Medicine, Southampton, UK.

105Department of Biology, Medical Genetics and Ecology, Kursk State Medical University,

305041 Kursk, Russian Federation. 106KSMU Study Investigator. 107Institute of Environmental

Medicine, Karolinska Institutet, Stockholm, Sweden. 108Astrid Lindgren Children’s Hospital,

Karolinska University Hospital, Stockholm, Sweden. 109BAMSE Study Investigator.

110AstraZeneca R&D Mölndal, Mölndal, Sweden. 111Sachs Children’s Hospital, Stockholm,

Sweden. 112Department of Biosciences and Nutrition, Karolinska Institutet, Stockholm, Sweden.

113Department of Pulmonology, University Medical Center Groningen, University of Groningen,

Groningen, the Netherlands. 114PIAMA Study Investigator. 115Department of Epidemiology,

University Medical Center Groningen, University of Groningen, Groningen, the Netherlands.

116Julius Center for Health Sciences and Primary Care, University Medical Center, Utrecht, the

Netherlands. 117Department of Pediatrics, Erasmus University Medical Centre, Sophia Children's

Hospital, Rotterdam, the Netherlands. 118Centre for Prevention and Health Services Research,

National Institute for Public Health and the Environment, Bilthoven, the Netherlands.

119Sanquin Research, Department of Immunopathology, Amsterdam, the Netherlands.

120Department of General Paediatrics, Radboud University Nijmegen Medical Centre, Nijmegen,

the Netherlands. 121Department of Pediatric Pulmonology and Pediatric Allergology, Beatrix

Children's Hospital, University Medical Centre Groningen, University of Groningen, Groningen,

the Netherlands. 122Royal Brompton and Harefield Foundation NHS Trust, London UK.

A GABRIEL Consortium Large-Scale Genome-Wide Association Study of Asthma

123Department of Paediatric Respiratory Medicine, Royal Brompton and Harefield NHS

Foundation Trust l. 124Pediatric Pneumology and Immunology, Charité Universitätsmedizin

Berlin, Berlin, Germany. 125Max-Delbrück-Centrum (MDC) for Molecular Medicine, Berlin-Buch,

Germany. 126The German Multicenter Allergy Study (MAS) Investigator. 127Skin and Allergy

Hospital, Helsinki University Central Hospital, Helsinki, Finland. 128KARELIA Allergy Study

(KARELIA) Investigator. 129National Institute for Health and Welfare, Helsinki, Finland.

130Department of Pulmonary Medicine, Helsinki University Central Hospital, Helsinki, Finland.

131Department of Epidemiology and Public Health, Imperial College, London, UK. 132University

Children’s Hospital, Asthma and Allergy Department, Ludwig Maximilians University, D80337

Munich, Germany.

Population and Cohort Descriptions, References and Acknowledgements

Asthma cases (childhood onset and adult onset) and controls involved in the GABRIEL Phase II

Genome Wide Association Study (GWAS) were obtained from a number of studies including: the

European Community Respiratory Health Survey (ECRHS);1-3 the Epidemiological study on the

Genetics and Environment of Asthma (EGEA);4,5 the GABRIEL Advanced Surveys (GABRIEL AS);

Genetics of Asthma International Network (GAIN);6-8 the Swiss study on Air Pollution and Lung

Disease In Adults (SAPALDIA);9-11 the Industrial Cohorts Research Group (INDUSTRIAL);12-20 the

Avon Longitudinal Study of Parents and Children (ALSPAC);21,22 the Busselton Health Study

(BUSSELTON);23,24 the Saguenay-Lac-Saint-Jean Familial Collection (SLSJ);25-27 the British 1958

Birth Cohort (B58C);28-32 the Canadian Childhood Cohorts: Canadian Asthma Primary Prevention

Study (CAPPS) and the Study of Asthma Genes and Environment (SAGE);33-37 the TOMSK study

(TOMSK);38,39 the UFA study (UFA); the KSMU study (KSMU);40,41 the BAMSE study (BAMSE);42,43

the PIAMA birth cohort (PIAMA);44,45 the Severe Asthma Cohorts (SEVERE);46-52 the German

Multicentre Allergy Study (MAS);53,54 and the Karelia Allergy Study (KARELIA).55

The genome-wide genotyping data generated from 807 childhood onset asthmatics and 971

non-asthmatics from family and case-referent panels in our primary GWAS56 was also included.

Brief descriptions of the studies involved with appropriate references are given below. Final

numbers of samples included from each study are after DNA, genotyping and analysis quality

checks (also see Table 1 main paper).

The studies (and the list of authors on the title page of the paper) are ordered according to the

number of cases and controls they contributed after quality control to the GWAS.

ECRHS: Sixteen centres (eight countries) in the ECRHS contributed samples to the GWAS.1-3 In

each centre, a representative community-based sample of at least 3000 adults aged 20-44 years

were invited to complete a brief postal questionnaire asking about respiratory symptoms

(ECRHS I - Stage 1) between 1991-1993. A random sample of these (600 per centre) underwent

intensive further investigation (ECRHS I - Stage 2 – random sample). Participants who had

symptoms highly suggestive of asthma but who had not been selected at random to take part in

Stage 2 were also invited to undergo intensive investigations (ECRHS I - Stage 2- enriched

sample). About ten years later all adults who had taken part in Stage 2 were re-contacted

(ECRHS II) and again asked about respiratory symptoms. Samples suitable for DNA extraction

were collected. For the GWAS initiative all cases of asthma were identified (participants from

the random or enriched sample who said yes to the question ‘Have you ever had asthma?’ at

either ECRHS I Stage 2 or at ECRHS II). Controls were a random sample (of the random sample)

who answered ‘no’ to the same question in both surveys. After quality control (QC) criteria a

total of 2,210 ECRHS subjects were retained in the GWAS analyses.

EGEA: Is a 12-year longitudinal survey which combines a case-control study and a family study.

The first survey (EGEA1) took place between 1992 and 1995.4,5 The study population included

388 asthmatics recruited in chest clinics and their 1,243 family members plus 416 population-

based controls (total of 2,047 subjects). The probands (asthmatics and controls) were between 7

Population and Cohort Descriptions, References and Acknowledgements

and 70 years old at time of study. All probands and their two parents were of European ancestry

and were born in France. The second survey (EGEA2) was conducted between 2003 and 2007

and included follow-up data in 1,543 subjects from the initial cohort and 58 new family

members. Data collected through face-to-face interviews and examination included extensive

phenotypic characterization (detailed clinical data based on standardized questionnaire, skin

prick tests, lung function tests, bronchial responsiveness, blood samples, white blood cell

counts, total IgE), data on risk factors (environmental exposures, diet, physical activity,

hormone-related events) and drug consumption. Detailed description of the study can be found

in Kauffmann et al4,5 and at http://ifr69.vjf.inserm.fr/~egeanet. For the GWAS initiative, all cases

of asthma were identified by a positive answer to the question “Have you ever had asthma

attacks” at EGEA1 (or at EGEA2 if not examined at EGEA1). Written informed consent was

obtained from all subjects (or their parents) participating in the study under an Institutional

Review Board-approved protocol. After QC, a total of 1,928 EGEA subjects were retained in the

GWAS analyses.

GABRIEL ADVANCED SURVEYS: Are cross-sectional population-based surveys conducted in rural

areas of Austria, Germany, and Switzerland. In total, 135,359 children aged 6-12 years were

addressed through schools. In a first stage in fall/winter 2006, asthma, allergic disease, and

contact to farming environments were assessed using a short parental questionnaire

(n=79,888). In a second stage in spring/summer 2007, 9,668 children were selected among

families consenting in writing to blood sampling, genetic testing and collection of environmental

samples by stratified random sampling to ensure representation of children with high exposure

to farming environments. Genomic DNA was purified from blood samples using the Puregene

chemistry (QIAGEN, Hilden, Germany) on an Autopure LS instrument (QIAGEN, Hilden,

Germany). Genomic DNA and questionnaire data were available for 7,303 children of whom 862

cases and 865 controls were selected for genotyping. A case was defined as a parental report of

asthma diagnosed by a doctor at least once or asthmatic bronchitis diagnosed at least twice

during lifetime. To account for the stratified random sampling, probability weights were

introduced in the statistical analyses. After QC a total of 1,692 subjects were retained in the

GWAS analyses.

GAIN: Families were identified through probands aged 7-35 yrs with physician diagnosed

asthma, with at least one sibling who had symptoms of asthma for a minimum of two

continuous years since the age of 7 years, but not necessarily currently, and with both biological

parents available for study.6-8 A common protocol was used including respiratory questionnaires

for children modified from the International Study of Asthma and Allergies in Childhood (ISAAC)

and for adults from the American Thoracic Society (ATS) and ECHRS instruments that had been

validated in several studies and with translation into the required language. Baseline spirometry,

methacholine challenge using the Cockcroft protocol and SPT to a common panel of 7 aero

allergens were performed with an additional local allergen (eg Birch in the Norwegian centre

and Olive in the Greek centre). A total of 1,022 nuclear families were recruited to the Genetics

of Asthma International Network population.6-8 Only children from nuclear families from eight

Population and Cohort Descriptions, References and Acknowledgements

GAIN Centres were included in the GWAS initiative. The eight centres involved were; Greece,

Perth, Aberdeen, Groningen, Leicester, Norway, Sheffield and Germany. In addition, samples for

children from the nuclear families collected from Minnesota by Dr. Malcolm Blumenthal (Part of

the Progenitor Collection) were also included. Cases had a doctor diagnosis of asthma. After QC

a total of 1,610 subjects were retained in the GWAS analyses.

SAPALDIA: Contributed all self-reported asthma cases as well as a random sample of controls.

These subjects were obtained from among 6,055 SAPALDIA cohort subjects that participated in

both, the baseline (1991) and follow-up (2002) examinations and agreed to providing blood for

genetic analysis. SAPALDIA is a population-based cohort that originally recruited subjects aged

18 to 60 from population registries in eight Swiss communities representing the three largest

language groups (German, French, Italian) as well as different levels of air pollution, altitude and

degrees of urbanization.9-11 At both baseline and follow-up examination subjects underwent

spirometry as well as a detailed interview on respiratory health, smoking history, lifestyle factors

and anthropometry. At follow-up, 8,047 of 9,651 baseline subjects re-participated in at least one

part of the study and a formal biobank was established. SAPALDIA questions about smoking and

asthma status were equivalent to those used by the ECRHS. Asthma status was defined by an

affirmative answer to the question “Have you ever had asthma” at baseline and/or follow-up

interview. After QC a total of 1,521 subjects were retained in the GWAS analyses.

INDUSTRIAL (the Industrial Cohorts Research Group): The study base consists of several pooled

surveys on occupational asthma from Denmark and The Netherlands. The populations come

from industries with exposure to known major allergens and irritants; high molecular weight

sensitizers (wheat flour, fungal alpha amylase, animal allergens), low molecular weight

sensitizers (isocyanate monomers and oligomers) and irritants and inflammatory agents

(isocyanates, organic dust, endotoxins, wood). Prevalent cases and industry, gender and age

matched study-specific controls were included for the GWAS initiative. Briefly, cases and

controls originate from the following population based or prospective cohort studies in

agricultural dust and/or animal exposed environments: the Danish SUS study12,13, the Dutch

Omega14,15 and Veterinarian’s Health Study; in wheat and amylase exposed environments: the

bakers from the Dutch Bakers health surveillance project16; in wood dust exposed environments:

workers in the Danish furniture industry of the Danish Wood Dust Cohort;17,18 and for isocyanate

exposed workers: a population of Dutch industrial spray painters.19,20 Asthma, respiratory

symptoms and potential confounders like smoking were primarily assessed from questionnaires.

More objective health measures were also collated including lung function measurements, a

specific bronchial hyperresponsiveness and specific IgE measurements. Exposure was assessed

by taking job histories from questionnaires. For all studies extensive measurement series have

been collected which have been used to create generic or study specific Job Exposure Matrices

by which the exposure can be estimated quantitatively on the basis of job title and sometimes

tasks performed. After QC a total of 1,227 subjects were retained in the GWAS analyses.

Population and Cohort Descriptions, References and Acknowledgements

ALSPAC: is a population-based, prospective, longitudinal, birth-cohort study that was recruited

during pregnancy. Pregnant women resident in Avon, United Kingdom and with estimated dates

of delivery 1/4/1991-31/12/1992 were recruited through antenatal clinics.21,22 Of 14,451

pregnancies recruited, there were 14,072 live births and 13,988 children remained alive at age 1

year. Children have been followed from birth using a combination of self-completion

questionnaires sent at regular intervals to their mothers and hands-on assessments at annual

dedicated research clinics from age 7 years.

Asthma in children was defined as a positive response to the question, “Has a doctor ever told

you that your child has asthma?” in a questionnaire sent to their mothers at 91 months after

birth. A total of 5,231 children had data on asthma at 91 months with DNA available for

genotyping. Of these, 650 (12.4%) had asthma. An equal number of controls were selected at

random from the remaining population with questionnaire responses at 91 months and DNA

available. After QC a total of 1,216 subjects were retained in the GWAS analyses.

BUSSELTON: Residents of the town of Busselton in the southwest of Western Australia have

been involved in a series of health surveys since 1966.23 The population is predominantly of

European origin. In 1994/95 there was a follow-up study involving a subset of those who had

attended any of the previous surveys. Cases of asthma were defined as those who reported

doctor-diagnosed asthma at any survey that they attended from 1966 to 1994 (answer ‘Yes’ to

‘Has your doctor ever told you that you had asthma?’).24 Controls are those who have

consistently answered ‘No’ to ‘Has your doctor ever told you that you had asthma?’ at all

previous surveys that they have attended from 1996 to 1994. For the GWA study, a case control

sample of unrelated individuals was selected. After QC a total of 1,207 subjects were retained in

the GWAS analyses.

SLSJ: Subjects are from the Saguenay-Lac-Saint-Jean (SLSJ) asthma study, which consists of

French-Canadian families ascertained through asthmatic probands. Probands were included in

the study if they fulfill at least two of the following criteria: 1) a minimum of three clinic visits for

acute asthma within one year; 2) two or more asthma-related hospital admissions within one

year; or 3) steroid dependency, as defined by either six months of oral, or one year of inhaled

corticosteroid use. Individuals from 253 independent families were included in the study.

Families were included in the study if at least one parent was available for phenotypic

assessment, at least one parent was unaffected, and all four grandparents were of French-

Canadian origin. Family members were considered asthmatics if both a self-reported history of

asthma and a history of physician-diagnosed asthma were available, or by clinical evaluation

following a methacholine provocation test.25-27 Spirometry, methacholine challenge and IgE

measurements are described in Poon et al and Bérgin et al.25,26 The SLSJ local ethics committee

approved the study, and all subjects gave informed consent. After QC a total of 1,199 subjects

were retained in the GWAS analyses.

B58C: Is a national population sample followed periodically from birth. Asthma and wheezy

bronchitis were ascertained by parental interviews at age 7, 11 and 16 years, and by interview of

Population and Cohort Descriptions, References and Acknowledgements

cohort members at age 23, 33 and 42 years, as described in greater detail elsewhere.28,29 For

the purposes of the GABRIEL GWA study, cases were defined as subjects reporting a history of

asthma ever at age 33 or 42 years, or with a parentally reported history of asthma at age 7 or 11

years. Controls were selected from the remainder of the cohort, so persons with a history of

wheezing (without asthma) were not excluded as potential controls. Cases were defined as

childhood-onset if they had a parentally reported history of asthma and/or wheezy bronchitis

ever at age 7, 11 or 16 years.

At age 44-45 years, cohort members were examined by a research nurse in the home as

described previously30 and non-fasting blood samples were collected with permission for DNA

extraction and creation of immortalised cell cultures

(http://www.b58cgene.sgul.ac.uk/collection.php). Serum total and allergen-specific

immunoglobulin E levels were measured by the Hytec enzyme immunoassay (Hycor Biomedical,

Irvine, CA, USA) as described previously.29 Ethical approvals for the 2002-2004 fieldwork,

including consent procedures, were obtained from the Southeast England Multicentre Research

Ethics Committee.

About half of the 8,051 DNA samples had previously been genotyped using the Illumina

HumanHap550 platform by the Wellcome Trust Sanger Institute31 or the Type 1 Diabetes

Consortium.32 That half of the cohort was reserved for in silico replication studies, and all eligible

cases from the remainder of the cohort, with a similar number of controls, were selected for

whole-genome typing by the GABRIEL collaboration. After QC a total of 865 subjects were

retained in the GWAS analyses.

Canadian Childhood Cohorts: (http://www.genopha.ca/) CAPPS was initiated in 1995 to assess

the effectiveness of a multifaceted intervention program on the primary prevention of asthma

in high-risk infants. Infants at high risk for developing asthma and other allergic disorders were

identified and their mothers were recruited during their third trimester of pregnancy. Infants at

high risk were defined as those who had a parent with asthma or two first-degree relatives with

allergies or atopic disorders. The study had two recruitment centres in Canada, (Vancouver and

Winnipeg). In total, there were 545 families recruited into the study (549 infants, 4 sets of

twins). Loss to follow-up was minimal, with 86% of the families completing the questionnaire at

the 7-year time point. There have been numerous publications on this cohort evaluating the

effectiveness of the intervention strategy. For genetic analysis blood samples have been

obtained from the children, and both parents. The Ethics Committees of the University of British

Columbia and the University of Manitoba approved the study and parents provided written

informed consent for participation.

SAGE is a population-based sample of 16,320 children, born in the province of Manitoba,

Canada in the year of 1995. In 2002, a one-page survey was mailed to families to enquire about

their health and home environment exposure. Questions included several chronic conditions in

childhood, including hayfever, food allergy and asthma. Parents were asked for permission to be

contacted for further study and to link the survey data to their child’s health care database

Population and Cohort Descriptions, References and Acknowledgements

records. Children were stratified according to the presence of asthma (n=392), to the presence

of hayfever or food allergy (n=192) and neither (n=3,002). Children with neither condition were

further grouped by rural and urban location; the latter were further stratified by low and high

income neighbourhoods. All children in the asthma and allergy strata were invited to participate

in the case-control study, as were a random sample (n=200) from the strata of children with

neither condition. Following consent from parents to participate in the study, children were

assessed for allergic phenotypes.

After QC a total of 821 subjects from the Canadian Childhood Cohorts (CAPPS n=414 and SAGE

n=407) were retained in the GWAS analyses.33-37

TOMSK: Is a population-based family study conducted by the Research Institute of Medical

Genetics and Siberian State Medical University (Tomsk, Russia) from 1998 onwards.38,39 Both

nuclear families and extended pedigrees were recruited through atopic bronchial asthmatic

probands. All participants were Russians or of a mixed ethnic origin due to marriages between

Russians and major East Slavonic populations (Ukrainians, Byelorussians). Altogether, 196

families were studied, out of which 150 families were recruited in Tomsk Region Children

Hospital and Tomsk Region Hospital (Tomsk, Russia), and 46 families were recruited in the city of

Irkutsk hospitals by the staff of the Irkutsk State Institute of Doctor’s Advanced Training (Irkutsk,

Russia). Both probands and their relatives were clinically examined to establish diagnosis of

asthma and atopy by the GINA criteria (Global Initiative for Asthma: Global Strategy for Asthma

Management and Prevention. http://www.ginasthma.org). Besides the clinical examination,

laboratory and functional testing were conducted to assess common IgE levels (solid-phase

immune-enzyme assay), specific sensitization (skin-prick tests), lung volumes (spirometry), and

airway responsiveness (bronchoprovocative tests with methacholine). After QC a total of 681

subjects were retained in the GWAS analyses.

UFA: Is a population-based case-control study of asthma cases and controls matched on age

and sex. Cases are unrelated patients with physician-diagnosed asthma and controls disease-

free. Subjects are of different ethnic origins (Russians, Tatars and Bashkirs) from Volga-Ural

region of Russian Federation. The Volga-Ural region is located at the border between Europe

and Asia and has been the arena of permanent genetic exchanges among Siberian, European,

Central Asian and other populations. Anthropologically, Russians, Tatars and Bashkirs are

Caucasians and have a varying Asian component. Recruitment of cases and controls was carried

out by the Hospital of the Bashkir Medical State University and Ufa Municipal Hospital №21

between 1999 and the year 2007. Asthma patients were diagnosed by pulmonologists on the

basis of clinical examination, family and medication history, objective tests of lung function. The

controls were healthy subjects who met all the following criteria: (1) no symptoms or history of

asthma or other pulmonary diseases; (2) no symptoms or history of atopy; and (3) absence of

first-degree relatives with a history of asthma or atopy. The study was approved by the Ethical

Committee of the Institute of Biochemistry and Genetics of Ufa Scientific Centre of RAS. All

participants or their parents gave written informed consent. After QC a total of 678 subjects

were retained in the GWAS analyses.

Population and Cohort Descriptions, References and Acknowledgements

KSMU: is a population-based case-control study of adult cases of asthma and controls matched

for age and sex.40,41 A total of 429 unrelated subjects were recruited in this study, (215 patients

with asthma and 214 controls). The study subjects were of Russian origin from Central Russia. All

patients were recruited at the Department of Pulmonology, Kursk Regional Clinical Hospital

between 2003 and 2004. Additional adult patients with asthma and healthy subjects (>200

samples) from the same population were recruited between 2007 and 2008 specially in order to

increase final sample size for the GWAS initiative. All patients were diagnosed with asthma by

the presence of characteristic symptoms, reversibility of airway obstruction or airway

hyperresponsiveness to methacholine. All control subjects were enrolled in accordance with the

following criteria: (1) no symptoms and history of allergic diseases, (2) normal total serum IgE

levels, (3) and normal pulmonary function test results. Personal data, including smoking status

and age of the disease onset, was collected through in-person interviews. The study was

approved by the Ethical Review Committee of Kursk State Medical University, and the subjects

who were recruited gave informed consent. After QC a total of 568 subjects were retained in

the GWAS analyses.

BAMSE: Between 1994 and 1996, 4,089 newborn infants were recruited in the BAMSE study,

and questionnaire data on baseline study characteristics were obtained.42,43 The catchment area

included central and north-western parts of Stockholm. At approximately one, two, four, and

eight years of age, parents completed questionnaires on their children’s symptoms related to

asthma and other allergic diseases. The response rates were 96%, 94%, 92% and 84%,

respectively. At eight years of age, all children of the BAMSE study were invited to clinical

testing, and blood samples were obtained from 2,480 children. DNA was extracted from 2,033

samples after exclusion of samples with too little blood, lack of questionnaire data, or if parental

consent to genetic analysis of the sample was not obtained. From these samples, all children

with a doctor’s diagnosis of asthma (ever) were selected as cases and children with no history of

asthma or other allergic diseases were selected as controls. The study was approved by the

Ethics Committee of Karolinska Institutet, Stockholm, Sweden. After QC a total of 485 subjects

were retained in the GWAS analyses.

PIAMA: Is a birth cohort study consisting of two parts: a placebo controlled intervention study

in which the effect of mite impermeable mattress covers was studied and a natural history study

in which no intervention took place. In this study, only data from the natural history part of the

study are presented. Details of the study design have been published previously.44,45

Recruitment took place in 1996-1997. A screening questionnaire was distributed to pregnant

women visiting one of 52 prenatal clinics. 10,232 pregnant women completed a validated

screening questionnaire at their prenatal health care clinic. Based on this screening, 7,862

women were invited to participate, of whom 4,146 women agreed and gave informed consent.

Mothers reporting a history of asthma, current hay fever or allergy to pets or house dust mite

were defined as allergic. Follow-up of the children took place at 3 months of age and yearly from

1 to 8 years of age. The Medical Ethical Committees of the participating institutes approved the

study, and all participants gave written informed consent. The response rates to the annual

Population and Cohort Descriptions, References and Acknowledgements

questionnaires ranged from 3,030 (92%) at age 1 to 2,732 (83%) at age 8 years. For the GWA

study, DNA from childhood asthma cases and a set of matched non-asthmatic controls were

provided. After QC a total of 359 subjects were retained in the GWAS analyses.

SEVERE: Severe/refractory cases of asthma were recruited through three specialist severe

asthma clinics; adult and childhood clinics based at the Royal Brompton Hospital, London and an

adult clinic at the Glenfield Hospital, Leicester. Patients attending the Glenfield Hospital clinics

had full characterisation and were deemed to have severe/refractory asthma according to a

specialised protocol involving parameters of airway inflammation, airway physiology, as well as

quality of life and control of symptoms.46,47 Those attending Royal Brompton Hospital adult

clinics were also fully characterised, with severe asthma defined according to the ATS and ERS

definition of severe asthma.48,49

Severe asthma in the paediatric clinic was defined as one or more of the following criteria: (1)

Persistent (most days, for at least 3 months) chronic symptoms (the necessity because of

symptoms for short-acting β-2 agonists at least three times/week) of airways obstruction

despite high dose inhaled corticosteroids (Beclomethasone equivalent 800 mcg/day) and trials

of every add-on medication available in the country of residence (these would include, if

available, long acting β-2 agonist, leukotriene receptor antagonist, oral theophylline in the low,

anti-inflammatory dose). This group includes Type 1 brittle asthma. (2) Recurrent severe asthma

exacerbations despite attempts with medication including trials of allergen avoidance, low dose

daily inhaled corticosteroids or intermittent high dose inhaled corticosteroids: either at least one

admission to an intensive care unit, or at least two hospital admissions requiring intravenous

medication/s, or > 2 courses of oral steroids during the last year, despite the above therapy. This

group includes Type 2 brittle asthma. (3) Persistent airflow obstruction: post oral steroid, post-

bronchodilator Z score < -1.96 for FEV1, with appropriate normative data despite the above

therapy. (4) The necessity of prescription of alternate day or daily oral steroids to achieve

control of asthma. Children were evaluated in detail to exclude as far as possible non-adherence

to therapy, significant co-morbidity (for example, rhinosinusitis and gastroesophageal reflux),

psychosocial issues and adverse environmental circumstances as contributing factors to the

severity of asthma.49-52

Because of the relatively small numbers of severe asthmatics, this group were not subdivided

into childhood onset and adult onset groups. After QC a total of 290 subjects were retained in

the GWAS analyses.

MAS: Consists of 1,314 healthy mature children born in 5 German cities in the year 1990. All

children were followed at the age of 1, 3, 6, 12, 18, and 24 months and at yearly intervals

thereafter until age 15 years.53,54 Clinical and environmental assessment included standardized

interviews, questionnaires, physical examinations, and environmental studies. Total and specific

IgE antibodies to hen’s egg, cow’s milk, wheat, and soy were determined at the age of 1, 2, 3, 5,

7, and 10 years. DNAs from all children with a doctor diagnosis of asthma were provided for the

GWA study. After QC a total of 171 subjects were retained in the GWAS analyses.

Population and Cohort Descriptions, References and Acknowledgements

KARELIA: A random sample of children, aged 7-16 years, and their mothers, were recruited to

the Karelia Allergy Study from 24 schools in Finland and 11 schools in Russia. 546 child-mother

pairs from Finland and 550 of those from Russia were enrolled. Data obtained by questionnaire

was available from 413 (75.6%) children and from 409 (74.9%) mothers in Finland and from 448

(81.5%) children and 439 (79.8%) mothers in Russia.55 The present study is based on the 1,391

DNA samples obtained from the participants. For the GWA study, DNA from both childhood

onset and adult onset asthma cases was provided as well as appropriately matched controls.

After QC a total of 148 subjects were retained in the GWAS analyses.

Wellcome Trust Case Control Consortium (WTCCC): For the GAIN and SEVERE cohorts detailed

above, control data for analysis was obtained through the WTCCC (http://www.wtccc.org.uk).

Data used was from 2,507 samples available for the UK National Blood Service Control collection

genotyped using an Illumina 1.2M custom chip.

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ACKNOWLEDGEMENTS:

ECRHS: The co-ordination of ECRHS II was supported by the European Commission, as part of

their Quality of Life programme. The following bodies funded the local studies in ECRHS II:

Albacete: Fondo de Investigaciones Santarias (FIS) (grant code: 97/0035-01, 99/0034-01 and

99/0034-02), Hospital Universitario de Albacete, Consejeria de Sanidad; Barcelona: SEPAR,

Public Health Service (grant code: R01 HL62633-01), Fondo de Investigaciones Santarias (FIS)

(grant code: 97/0035-01, 99/0034-01 and 99/0034-02) CIRIT (grant code: 1999SGR 00241) Red

Respira ISCII; CIBER Epidemiologia y Salud Pública (CIBERESP), Spain Basel: Swiss National

Science Foundation, Swiss Federal Office for Education & Science, Swiss National Accident

Insurance Fund (SUVA), USC NIEHS Center grant 5P30 ES07048; Bergen: Norwegian Research

Council, Norwegian Asthma & Allergy Association (NAAF), Glaxo Wellcome AS, Norway Research

Fund; Erfurt: GSF-National Research Centre for Environment & Health, Deutsche

Forschungsgemeinschaft (DFG) (grant code FR 1526/1-1); Galdakao: Basque Health Dept;

Grenoble: Programme Hospitalier de Recherche Clinique-DRC de Grenoble 2000 no. 2610,

Ministry of Health, Direction de la Recherche Clinique, CHU de Grenoble, Ministere de l'Emploi

et de la Solidarite, Direction Generale de la Sante, Comite des Maladies Respiratoires de l’Isere;

Hamburg: GSF-National Reasearch Centre for Environment & Health, Deutsche

Forschungsgemeinschaft (DFG) (grant code MA 711/4-1); Ipswich and Norwich: Asthma UK

(formerly known as National Asthma Campaign); Huelva: Fondo de Investigaciones Santarias

(FIS) (grant code: 97/0035-01, 99/0034-01 and 99/0034-02); Oviedo: Fondo de Investigaciones

Santarias (FIS) (grant code: 97/0035-01, 99/0034-01 and 99/0034-02) ; Paris: Ministere de

l'Emploi et de la Solidarite, Direction Generale de la Sante, UCB-Pharma (France), Aventis

(France), Glaxo France, Programme Hospitalier de Recherche Clinique-DRC de Grenoble 2000

no. 2610, Ministry of Health, Direction de la Recherche Clinique, CHU de Grenoble; Tartu:

Estonian Science Foundation; Umeå: Swedish Heart Lung Foundation, Swedish Foundation for

Health Care Sciences & Allergy Research, Swedish Asthma & Allergy Foundation, Swedish Cancer

& Allergy Foundation; Uppsala: Swedish Heart Lung Foundation, Swedish Foundation for Health

Population and Cohort Descriptions, References and Acknowledgements

Care Sciences & Allergy Research, Swedish Asthma & Allergy Foundation, Swedish Cancer &

Allergy Foundation. Financial support for ECRHS I for centres in ECRHS II was provided by:

Ministère de la Santé, Glaxo France, Insitut Pneumologique d'Aquitaine, Contrat de Plan Etat-

Région Languedoc-Rousillon, CNMATS, CNMRT (90MR/10, 91AF/6), Ministre delegué de la

santé, RNSP, France; GSF, and the Bundesminister für Forschung und Technologie, Bonn,

Germany; Norwegian Research Council project no. 101422/310; Ministero Sanidad y Consumo

FIS (grants #91/0016060/00E-05E and #93/0393), and grants from Hospital General de

Albacete, Hospital General Juan Ramón Jiménenz, Consejeria de Sanidad Principado de Asturias,

Spain; The Swedish Medical Research Council, the Swedish Heart Lung Foundation, the Swedish

Association against Asthma and Allergy; Swiss National Science Foundation grant 4026-28099;

National Asthma Campaign, British Lung Foundation, Department of Health, South Thames

Regional Health Authority, UK. EGEA: The study was funded by INSERM, the French Ministry of

Higher Education and Research, University of Evry, the French Agency for Environmental and

Occupational Health Safety (grant Afsset-APR-SE-2004), the French National Agency for

Research (grants ANR 05-SEST-020-02/05-9-97 and ANR 06-CEBS), Hospital program of clinical

research (PHRC) Grenoble and Paris, Committee of Respiratory diseases, Isere committee

against respiratory diseases, Medico-technology support at home (Agiràdom), Merck Sharp

Dohme grant, and the European Commission as part of the Ga2len project, Global Allergy and

Asthma European Network (contract n° FOOD-CT-2004-506378). EGEA cooperative group:

Coordination: F. Kauffmann; F. Demenais (Genetics); I. Pin (Clinical Aspects); Respiratory

epidemiology: Inserm U 700, Paris: M. Korobaeff (EGEA1), F. Neukirch (EGEA1); Inserm U 707,

Paris: I. Annesi-Maesano; Inserm U 780, Villejuif: F. Kauffmann, N. Le Moual, R. Nadif, M.P.

Oryszczyn; Inserm U 823, Grenoble: V. Siroux; Genetics: Inserm U 393, Paris: J. Feingold; Inserm

U 946, Paris: E. Bouzigon, F. Demenais, M-H. Dizier; CNG, Evry: I. Gut, M. Lathrop; Clinical

Centres: Grenoble: I. Pin, C. Pison; Lyon: D. Ecochard (EGEA1), F. Gormand, Y. Pacheco;

Marseille: D. Charpin (EGEA1), D. Vervloet; Montpellier: J. Bousquet; Paris Cochin: A. Lockhart

(EGEA1), R. Matran (now in Lille); Paris Necker: E. Paty, P. Scheinmann; Paris-Trousseau: A.

Grimfeld, J. Just.; Data and Quality Management: Inserm ex-U155 (EGEA1): J. Hochez; Inserm U

780, Villejuif: N. Le Moual, C. Ravault; Inserm ex-U794: N. Chateigner; Grenoble: J. Ferran.

GABRIEL AS: The GABRIEL Advanced Surveys were funded by the European Commission as part

of GABRIEL (A multidisciplinary study to identify the genetic and environmental causes of

asthma in the European Community) contract number 018996 under the Integrated Program

LSH-2004-1.2.5-1 Post genomic approaches to understand the molecular basis of asthma aiming

at a preventive or therapeutic control. In addition we gratefully acknowledge the following key

individuals: University of Basel: M. Waser PhD and R. Lauener MD; University of Munich (LMU):

J. Weber MD, C. Strunz-Lehner MPH and U. Stubenvoll; University of Innsbruck: K. Kovacs MD

and B. Morass MD and University of Ulm: G. Buechele MPH. GAIN: We gratefully acknowledge

the assistance of the site coordinators for the family collections and GSK Genetics sample

management and data management. SAPALDIA: The SAPALDIA Study is supported by grants

from the Swiss National Science Foundation (grants no 3347CO-108796, 3247BO-104283,

3247BO-104288, 3247BO-104284, 32-65896.01, 32-59302.99, 32-52720.97, 32-4253.94, 4026-

28099, PDFMP3-123171), by the Federal Office for Forest, Environment and Landscape, the

Population and Cohort Descriptions, References and Acknowledgements

Federal Office of Public Health, the Federal Office of Roads and Transport, the canton’s

government of Aargau, Basel-Stadt, Basel-Land, Geneva, Luzern, Ticino, Zurich, the Swiss Lung

League, the canton’s Lung League of Basel Stadt/ Basel Landschaft, Geneva, Ticino and Zurich.

Study directorate: T. Rochat (p), U. Ackermann-Liebrich (e), J.M. Gaspoz (c), P. Leuenberger (p),

L.J.S. Liu (exp), N.M. Probst Hensch (e/g), C. Schindler (s). Scientific team: J.C .Barthélémy (c), W.

Berger (g), R. Bettschart (p), A. Bircher (a), G. Bolognini (p), O. Brändli (p), M. Brutsche (p), L.

Burdet (p), M. Frey (p), M.W. Gerbase (p), D. Gold (e/c/p), W. Karrer (p), R. Keller (p), B. Knöpfli

(p), N. Künzli (e/exp), U. Neu (exp), L. Nicod (p), M. Pons (p), E. Russi (p), P. Schmid-

Grendelmeyer (a), J. Schwartz (e), P. Straehl (exp), J.M. Tschopp (p), A. von Eckardstein (cc), J.P.

Zellweger (p), E. Zemp Stutz (e). Scientific team at coordinating centres: P.O. Bridevaux (p), I.

Curjuric (e), J. Dratva (e), D. Felber Dietrich (c), D. Keidel (s), M. Imboden (g), A. Ineichen (exp),

H. Phuleria (exp), E. Schaffner (s), G.A. Thun (g), M. Ritter (exp). (a) allergology, (c) cardiology,

(cc) clinical chemistry, (e) epidemiology, (exp) exposure, (g) genetic and molecular biology, (p)

pneumology, (s) statistics. The study could not have been done without the help of the study

participants, technical and administrative support and the medical teams and field workers at

the local study sites. Local fieldworkers: Aarau: M. Broglie, M. Bünter, D. Gashi, Basel: R.

Armbruster, T. Damm, U. Egermann, M. Gut, L. Maier, A. Vögelin, L. Walter, Davos: D. Jud, N.

Lutz, Geneva: M. Ares, M. Bennour, B. Galobardes, E. Namer, Lugano: B. Baumberger, S. Boccia

Soldati, E. Gehrig-Van Essen, S. Ronchetto, Montana: C. Bonvin, C. Burrus, Payerne: S. Blanc,

A.V. Ebinger, M.L. Fragnière, J. Jordan, Wald: R. Gimmi, N. Kourkoulos, U. Schafroth.

Administrative staff: N. Bauer, D. Baehler, C. Gabriel, R. Nilly. INDUSTRIAL: We would like to

acknowledge the other team member of the various Industrial surveys including: C. Hjort

(Danish SUS cohort), I. Schaumburg, G. Jacobsen (Danish Wood Dust cohort), E. Meijer, E.

Suarthana (Dutch Bakers Health Surveillance Project), L.A.M. Smit, G. Doekes (Dutch OMEGA

study) and A. Pronk, G. Doekes, J-W. Lammers, L. Preller, (Dutch Isocyanate study). We would

also like to thank the following for their support: the Dutch Asthma Foundation; Ceffic, Long-

range research initiative, Belgium; the Dutch Ministry of Social Affairs and Employment; The

Dutch Product Board for Grains, Seeds and Pulses; TNO Quality of Life; The Danish Agency for

Science Technology and Innovation, The Danish Medical Research Council, The Danish

Agricultural Research Council, Helsefonden, The P.C. Petersen Foundation, The Danish Working

Environment Research Fund, The Danish Research Council Aarhus University and The Danish

Lung Association. The Danish Work Environment Foundation; Viborg County; The Danish

Medical Research Council; The Health Insurance Fund; The Danish Lung Association. ALSPAC:

The UK Medical Research Council, the Wellcome Trust and the University of Bristol provide core

support for ALSPAC. BUSSELTON: The 1994-5 Busselton Health Survey was funded by

Healthway, Western Australia. The Busselton Health Studies are supported by the National

Health and Medical Research Council of Australia and the Great Wine Estates Auctions. SLSJ:

T.J. Hudson was the recipient of a Clinician-Scientist Award in Translational Research by the

Burroughs Wellcome Fund and an Investigator Award from the Canadian Institutes of Health

Research. C. Laprise is the chairholder of the Canada Research Chair on genetic determinants in

asthma (www.chairs.gc.ca <http://www.chairs.gc.ca> ) and the director of the Inflammation and

Remodeling Strategic Group of the Respiratory Health Network of the Fonds de la Recherche en

Population and Cohort Descriptions, References and Acknowledgements

Santé du Québec (FRSQ), which partially support the French Canadian study. Additional support

for the French Canadian study came from the National Centres of Excellence, Allergy, Genes and

Environment Network (AllerGen). B58C: We acknowledge use of phenotype and genotype data

from the British 1958 birth cohort DNA collection, funded by the Medical Research Council grant

G0000934 and the Wellcome Trust grant 068545/Z/02. (http://www.b58cgene.sgul.ac.uk/.

CAPPS & SAGE: The studies were supported by funding from the Canadian Institutes of Health

Research, AllerGen NCE. TOMSK: The Tomsk study was supported in part by Russian

Foundation for Basic Research grant (01-04-48213a), INTAS grant (05-1000004-7761), Federal

Agency on Science and Innovations grant (02.434.11.7117). We also wish to thank clinical

personnel from Tomsk hospitals and Irkutsk State Institute of Doctor’s Advanced Training for

selfless help in collection of asthma patients. UFA: We thank the staff members of Department

of Pediatrics and Department of Propaedeutics of internal diseases of Bashkir Medical State

University. The study was supported by the grant (№ 02.434.11.7115) from the Federal Agency

for Science and Innovation of the Russian Federation. KSMU: We thank the clinical staff

members from Kursk Regional Clinical Hospital for their valuable contribution to the collection

of patients with asthma for this study. The research was supported in part by a grant of the

President of Russian Federation (MD-3571.2008.7). BAMSE: The BAMSE Study was supported

by the Swedish Research Council, Stockholm County Council, Centre for Allergy Research,

Karolinska Institutet and the European Commission as part of GABRIEL. PIAMA: The PIAMA

study was funded by grants from the Dutch Asthma Fonds, the ZON-MW Netherlands

Organization for Health Research and Development, the Stichting Astmabestrijding and the

Ministry of the Environment. SEVERE: The Leicester collection was funded by the Wellcome

Trust. The Royal Brompton collection was supported by the European Commission as part of

GABRIEL (A multidisciplinary study to identify the genetic and environmental causes of asthma

in the European Community) contract number 018996 under the Integrated Program LSH-2004-

1.2.5-1 Post genomic approaches to understand the molecular basis of asthma aiming at a

preventive or therapeutic control. We would like to acknowledge other members of the clinical

and research team who were involved in the Royal Brompton collections: S. Meah, M. Hew, M.

Rosenthal, I. Balfour-Lynn, N. Wilson, P. Hall, M. Bracken-Hall and for extraction of DNA N.

Khorasani. MAS: Collaborators of the MAS group: R. Bergmann (Berlin, Germany) V. Wahn, M.

Groeger (Dusseldorf, Germany); J. Forster, U. Tacke (Freiburg, Germany); C-P. Bauer (Gaisach,

Germany); F. Zepp, I. Bieber (Mainz, Germany). This study was supported by the German

Ministry of Education and Research (BMBF) through grants number 01 EE9406 and 01GC9702/0,

and through the National Genome Research Project. KARIELIA: This study has been partly

funded by the Academy of Finland (grant no. 111177).

This study has also made use of data generated by the Wellcome Trust Case-Control

Consortium. A full list of the investigators who contributed to the generation of the data is

available from www.wtccc.org.uk. Funding for the project was provided by the Wellcome Trust

under award 076113.

Supplementary Methods and Figures

Supplementary Methods

DNA QC and Genotyping

Barcoded DNA samples were received in standard tubes together with sample information, and were

subjected to stringent quality control (QC). Concentration, fragmentation and response to PCR were

determined. Samples from cases and controls were randomly distributed on 96-well plates. Processing

was carried out under full LIMS control in a fully automated Illumina BeadLab equipped with 8 Tecan

liquid handling robots, 6 Illumina BeadArray readers and 2 Illumina iScans. Genotyping was carried out

using the Illumina Human610 quad array (www.illumina.com).

Statistical Analyses

Family relationships were confirmed or revised based on the results of an identity-by-state (IBS) analysis.

An ancestry analysis was carried out using the EIGENSTRAT2.0 software.1 HapMap data (CEU, YRI, JPT

and CHB) and samples of reference Europeans were used as representatives of European, West African

and East Asian populations to infer ancestry-informative principal components which were projected

onto the case and control samples.2 Putative non-European samples were flagged as outliers and

eliminated from subsequent analyses.

We restricted our random-effects pooled analysis to a reliable collection of SNPs fulfilling the following

quality control criteria: (1) genotype missing rate <3% in both cases and controls; (2) minor allele

frequency ≥ 1% in controls; (3) consistency with Hardy-Weinberg equilibrium by a 1 degree-of-freedom

goodness-of-fit test in controls (P>10-4). As the data comprised a mixture of unrelated and related cases

and controls, we used logistic regression models with robust sandwich estimation of the variance3 as

implemented in the Stata™ logit function to model clustering of family genotypes. Informative principal

components for within-Europe diversity were included as covariates in the association analysis. X-linked

markers were analyzed by fitting an additive-effects-only logit model which equates the risks of male

hemizygotes with female homozygotes.

Random-effects pooled analysis was carried out by combining association results from the 19 studies

contributing childhood-onset asthma cases; the 10 studies contributing later-onset cases; and all studies

combined (including known and unknown age of onset plus occupational and severe asthma) (Table 1).

All computations were done using Stata™ software V10.0. In order to include the results of our Phase I

GWAS, we used the MACH program to impute SNPs present in the Illumina 610K array but not in the

Hap300 array used for the first study. We used a "genotype dosage" analysis which took into account

uncertainty of imputing the missing genotypes.4

Pooled odds-ratios (ORs) and 95% Confidence Intervals (CIs) were calculated assuming a random effects

model and using the Der Simonian and Laird estimator of the between-study variance.5 Tests of

significance of the pooled effect sizes were performed using a standard normal distribution. We used a

threshold of P≤7.2x10-8 to declare a pooled effect as genome-wide significant,6 but also report findings

at the less stringent threshold of P≤5x10-7.7

We further computed pooled ORs and 95% CIs under a fixed effects model that is less conservative than

the random effects model and is appropriate when there is no evidence for heterogeneity among

studies. Tests of heterogeneity across studies were based on Cochran’s Q statistic and the I2 statistic was

used to quantify the proportion of total variation due to heterogeneity.5 We investigated heterogeneity

between the two groups of childhood-onset and later-onset asthma by testing for a difference between

the two onset-specific summary effects using a chi-square test with one degree of freedom.

Supplementary Methods and Figures

We identified independent effects of SNPs within each significant region by stepwise logistic regression.

Pairwise (multiplicative) interactions between significant SNPs belonging to these regions were tested

using similar models, as were interactions with sex and the natural-log transformed total serum IgE

loge(IgE) for all 14,754 subjects in whom total serum IgE estimates were available

We tested for association to loge(IgE) in additive (per-allele) regression models, and derived random and

fixed-effect (inverse-variance weighted) pooled estimates of significance. We investigated whether loci

showing genome-wide significant associations to asthma in our study showed any evidence of

association to loge(IgE) and whether loci showing genome-wide significant association to loge(IgE) in the

present or previous studies8 were also associated to asthma.

References

1. Patterson N, Price AL, Reich D. Population structure and eigenanalysis. PLoS Genet 2006;2:e190.

2. Heath SC, Gut IG, Brennan P, et al. Investigation of the fine structure of European populations

with applications to disease association studies. Eur J Hum Genet 2008;16:1413-29.

3. Williams RL. A note on robust variance estimation for cluster-correlated data. Biometrics

2000;56:645-6.

4. Li Y, Willer C, Sanna S, Abecasis G. Genotype imputation. Annu Rev Genomics Hum Genet

2009;10:387-406.

5. Higgins JP, Thompson SG. Quantifying heterogeneity in a meta-analysis. Stat Med 2002;21:1539-

58.

6. Dudbridge F, Gusnanto A. Estimation of significance thresholds for genomewide association

scans. Genet Epidemiol 2008;32:227-34.

7. Wellcome Trust Case Control Consortium. Genome-wide association study of 14,000 cases of

seven common diseases and 3,000 shared controls. Nature 2007;447:661-78.

8. Weidinger S, Gieger C, Rodriguez E, et al. Genome-wide scan on total serum IgE levels identifies

FCER1A as novel susceptibility locus. PLoS Genet 2008;4:e1000166.

Supplementary Methods and Figures

Supplementary Figure 1

Principal components analysis of distribution of genotype frequencies in the European Population

Study

Country

ALSPAC

B58C

BAMSE

Sweden

BUSSELTON

Australia

CAPPS & SAGE

Canada

ECRHS

Multicentre

EGEA

France

GABRIEL ADVANCED SURVEYS

Germany

GAIN

Multicentre

KARELIA ALLERGY STUDY

Finland

KMSU

Russia

MAGICS

Germany

MAS

Germany

MRCA-UKC

PIAMA

Holland

SALPADIA

Switzerland

SLSJ FAMILIAL COLLECTION

Quebec

TOMSK

Russia

UFA

Russia

Supplementary Methods and Figures

Supplementary Figure 2a

Manhattan plot of the results of the genome-wide association study for childhood-onset asthma using

random-effects pooled analysis

Chromosomal position is shown along the abscissa and –log10(P) is shown on the ordinate.

-log10(P)

Chromosome

Supplementary Methods and Figures

Supplementary Figure 2b

Manhattan plot of the results of the genome-wide association study for later-onset asthma using

random-effects pooled analysis

Chromosomal position is shown along the abscissa and –log10(P) shown on the ordinate.

-log10(P)

Chromosome

Supplementary Methods and Figures

Supplementary Figure 2c

Manhattan plot of the results of the genome-wide association study for loge(total serum IgE) using

random-effects pooled analysis of all cases and controls

Chromosomal position is shown along the abscissa and –log10(P) shown on the ordinate.

Supplementary Methods and Figures

Supplementary Figure 3

Forest plots of odds ratios and confidence intervals for markers with WTCC genome-wide significance

and an independent locus on chromosome 17q21 in different study populations

Odds ratios and confidence intervals are shown. Childhood-onset cases are shown above later-onset

cases and groups not differentiated by age of onset. In order to include the subjects from our original

genome screen, rs3771166 within IL1RN1 was chosen as a proxy for rs10206753 on chromosome 2.

Supplementary Table 1

Markers showing genome-wide significance association with asthma in at least one group and using either random or fixed effects model

chr gene rs position

Ref

allele

Alt

allele

Alt.

allele

freq.

OR (95% CI) P_random P_fixed OR (95% CI) P_random P_fixed OR (95% CI) P_random P_fixed

2 IL1RL2 rs11674302 102253560 T C 0.13 0.84 (0.77-0.9) 9.26E-06 9.26E-06 0.9 (0.74-1.09) 2.73E-01 4.78E-02 0.84 (0.78-0.91) 6.36E-06 1.69E-06

2 IL1RL1 rs13431828 102321085 C T 0.14 0.83 (0.76-0.89) 2.45E-06 2.45E-06 0.88 (0.72-1.07) 2.05E-01 1.38E-02 0.83 (0.77-0.9) 1.27E-06 1.26E-07

2 IL1RL1 rs10204137 102334644 A G 0.38 0.85 (0.81-0.9) 1.53E-08 1.53E-08 0.93 (0.84-1.03) 1.77E-01 8.53E-02 0.87 (0.83-0.91) 1.88E-08 1.40E-08

2 IL1RL1 rs10192157 102334788 C T 0.38 0.86 (0.81-0.9) 1.93E-08 1.93E-08 0.93 (0.85-1.03) 1.85E-01 9.79E-02 0.87 (0.83-0.92) 2.64E-08 2.11E-08

2 IL1RL1 rs10206753 102334794 T C 0.38 0.85 (0.81-0.9) 1.27E-08 1.27E-08 0.94 (0.85-1.03) 1.97E-01 1.01E-01 0.87 (0.83-0.91) 1.94E-08 1.54E-08

2 IL18R1 rs3771166 102352654 G A 0.38 0.85 (0.81-0.9) 1.12E-08 1.12E-08 0.94 (0.85-1.04) 1.98E-01 9.69E-02 0.87 (0.83-0.91) 1.76E-08 1.31E-08

2 IL18R1 rs4851004 102375969 C T 0.48 0.88 (0.83-0.93) 4.36E-06 1.59E-06 0.94 (0.87-1.02) 1.41E-01 1.41E-01 0.9 (0.86-0.94) 3.79E-06 1.41E-06

2 IL18R1 rs2287033 102377669 T C 0.48 0.88 (0.83-0.93) 3.37E-06 1.37E-06 0.94 (0.87-1.02) 1.41E-01 1.41E-01 0.9 (0.86-0.94) 3.00E-06 1.24E-06

2 IL18R1 rs1420094 102382119 C T 0.48 0.88 (0.83-0.93) 2.04E-06 1.20E-06 0.94 (0.87-1.02) 1.48E-01 1.48E-01 0.9 (0.86-0.94) 1.98E-06 1.18E-06

2 IL18RAP rs3755266 102409144 G A 0.48 0.88 (0.83-0.93) 6.75E-06 2.36E-06 0.93 (0.86-1.01) 7.77E-02 7.77E-02 0.9 (0.86-0.94) 2.45E-06 8.71E-07

2 IL18RAP rs2310300 102415506 A G 0.48 0.88 (0.83-0.93) 7.22E-06 2.23E-06 0.93 (0.86-1.01) 8.23E-02 8.23E-02 0.9 (0.86-0.94) 2.83E-06 8.92E-07

5 TSLP rs1837253 110429771 T C 0.74 1.14 (1.04-1.25) 3.54E-03 7.76E-06 1.15 (1.05-1.27) 3.11E-03 2.81E-03 1.15 (1.08-1.22) 3.32E-05 7.52E-08

5 SLC22A5 rs2073643 131751187 T C 0.55 0.89 (0.84-0.93) 7.62E-06 7.62E-06 0.94 (0.87-1.02) 1.53E-01 1.53E-01 0.9 (0.86-0.94) 6.20E-06 6.20E-06

5 RAD50 rs2897443 131957493 G T 0.20 1.16 (1.08-1.24) 1.99E-05 7.39E-06 1.11 (0.99-1.25) 8.29E-02 5.13E-02 1.15 (1.08-1.22) 4.92E-06 1.47E-06

5 RAD50 rs6871536 131997773 T C 0.20 1.17 (1.1-1.25) 7.55E-07 7.55E-07 1.11 (0.99-1.25) 8.58E-02 4.84E-02 1.16 (1.1-1.23) 2.23E-07 1.81E-07

5 RAD50 rs2240032 132005026 C T 0.20 1.17 (1.1-1.25) 8.68E-07 8.68E-07 1.1 (0.97-1.25) 1.23E-01 7.28E-02 1.16 (1.09-1.23) 3.72E-07 3.47E-07

5 IL13 rs1295686 132023742 T C 0.80 0.85 (0.79-0.9) 3.31E-07 3.31E-07 0.94 (0.85-1.04) 2.58E-01 2.38E-01 0.87 (0.83-0.92) 7.88E-07 8.05E-07

5 IL13 rs20541 132023863 A G 0.80 0.85 (0.8-0.91) 6.51E-07 6.51E-07 0.94 (0.84-1.05) 2.72E-01 2.20E-01 0.87 (0.82-0.92) 1.22E-06 1.24E-06

6 CCHCR1 rs130065 31230479 G A 0.21 1.18 (1.1-1.27) 7.35E-06 7.35E-06 1.16 (1.01-1.33) 3.10E-02 1.18E-03 1.18 (1.1-1.26) 6.71E-07 3.13E-08

6 HLA-DQ rs17843604 32728261 C T 0.54 1.12 (1.06-1.19) 1.74E-04 1.74E-04 1.28 (1.17-1.39) 1.14E-08 1.14E-08 1.17 (1.12-1.23) 1.55E-10 1.55E-10

6 HLA-DQ rs9273349 32733847 T C 0.58 1.14 (1.08-1.22) 1.85E-05 6.01E-06 1.26 (1.16-1.37) 3.92E-08 3.92E-08 1.19 (1.13-1.25) 1.97E-11 7.31E-12

9 RANBP6 rs371454 6068614 C T 0.81 1.16 (1.07-1.25) 2.00E-04 4.49E-05 1.12 (0.94-1.33) 2.04E-01 2.51E-02 1.15 (1.07-1.24) 9.08E-05 3.62E-06

9 IL33 rs340908 6118897 T C 0.82 1.15 (1.06-1.25) 5.55E-04 1.14E-04 1.14 (0.96-1.35) 1.28E-01 7.95E-03 1.15 (1.07-1.24) 1.62E-04 2.81E-06

9 IL33 rs1412426 6178652 A C 0.68 0.84 (0.77-0.92) 1.68E-04 1.46E-09 0.92 (0.84-1.02) 1.08E-01 8.00E-02 0.88 (0.82-0.94) 1.14E-04 1.82E-09

9 IL33 rs1342326 6180076 A C 0.16 1.27 (1.17-1.38) 1.60E-08 3.34E-11 1.12 (0.99-1.26) 6.75E-02 5.93E-02 1.22 (1.14-1.3) 1.37E-08 4.91E-11

9 IL33 rs992969 6199697 A G 0.75 0.81 (0.73-0.88) 5.72E-06 1.79E-12 0.89 (0.8-0.99) 2.48E-02 1.43E-02 0.84 (0.79-0.9) 1.16E-06 4.81E-13

9 IL33 rs3939286 6200099 T C 0.75 0.80 (0.73-0.88) 7.13E-06 1.94E-12 0.89 (0.8-0.98) 1.89E-02 1.19E-02 0.84 (0.79-0.9) 1.14E-06 4.11E-13

9 IL33 rs928413 6203387 G A 0.74 0.80 (0.74-0.88) 2.54E-06 8.77E-13 0.89 (0.8-0.99) 2.82E-02 1.24E-02 0.84 (0.78-0.9) 5.45E-07 2.17E-13

9 IL33 rs2066362 6209176 G T 0.16 1.28 (1.16-1.4) 4.29E-07 1.85E-11 1.13 (1-1.28) 4.55E-02 2.66E-02 1.22 (1.13-1.32) 1.80E-07 9.03E-12

9 IL33 rs17498196 6227547 A C 0.22 1.19 (1.08-1.3) 2.75E-04 4.35E-07 1.08 (0.97-1.2) 1.78E-01 1.39E-01 1.14 (1.06-1.22) 2.61E-04 5.06E-07

15 RORA rs11071559 58857280 C T 0.14 0.88 (0.81-0.95) 1.04E-03 1.04E-03 0.78 (0.69-0.88) 5.69E-05 5.69E-05 0.85 (0.79-0.9) 7.91E-07 7.91E-07

Childhood onset asthma

Later onset asthma

Childhood onset asthma

+ Later onset asthma

Supplementary Table 1

Markers showing genome-wide significance association with asthma in at least one group and using either random or fixed effects model

chr gene rs position

Ref

allele

Alt

allele

Alt.

allele

freq.

OR (95% CI) P_random P_fixed OR (95% CI) P_random P_fixed OR (95% CI) P_random P_fixed

Childhood onset asthma

Later onset asthma

Childhood onset asthma

+ Later onset asthma

15 SMAD3 rs744910 65233839 G A 0.51 0.89 (0.84-0.93) 8.08E-06 8.08E-06 0.94 (0.87-1.02) 1.44E-01 1.44E-01 0.9 (0.86-0.94) 5.60E-06 5.60E-06

15 SMAD3 rs12708492 65254595 T C 0.52 0.89 (0.84-0.94) 1.25E-05 1.25E-05 0.94 (0.87-1.02) 1.41E-01 1.41E-01 0.9 (0.87-0.95) 8.12E-06 8.12E-06

17 STARD3 rs1877031 35067606 G A 0.66 0.85 (0.8-0.89) 3.65E-09 3.65E-09 0.98 (0.89-1.08) 6.21E-01 7.27E-01 0.88 (0.84-0.92) 7.99E-08 2.76E-07

17 STARD3 rs2271308 35071008 T C 0.72 0.85 (0.8-0.9) 2.27E-08 2.27E-08 0.97 (0.88-1.06) 4.91E-01 5.19E-01 0.88 (0.84-0.92) 3.37E-07 4.78E-07

17 TCAP rs931992 35074961 G T 0.66 0.84 (0.8-0.89) 1.66E-09 1.66E-09 0.99 (0.9-1.09) 8.24E-01 9.30E-01 0.88 (0.83-0.92) 7.98E-08 2.73E-07

17 rs3764351 35077865 G A 0.66 0.85 (0.8-0.9) 7.60E-08 7.60E-08 0.96 (0.87-1.06) 4.08E-01 4.43E-01 0.88 (0.84-0.92) 5.01E-07 1.21E-06

17 PERLD1 rs2941503 35082271 A G 0.70 0.84 (0.79-0.9) 8.65E-08 8.68E-10 0.95 (0.87-1.04) 2.62E-01 2.62E-01 0.88 (0.84-0.92) 5.62E-07 8.52E-09

17 PERLD1 rs2941504 35084426 A G 0.70 0.84 (0.79-0.9) 1.01E-07 6.30E-10 0.95 (0.88-1.04) 2.93E-01 2.93E-01 0.88 (0.84-0.93) 8.19E-07 8.30E-09

17 PERLD1 rs1565922 35084561 A G 0.70 0.84 (0.79-0.9) 1.26E-07 7.63E-10 0.96 (0.87-1.05) 3.64E-01 3.74E-01 0.88 (0.83-0.92) 9.32E-07 1.10E-08

17 PERLD1 rs12150298 35088067 T C 0.66 0.84 (0.79-0.88) 1.74E-10 1.74E-10 0.98 (0.89-1.09) 7.64E-01 9.31E-01 0.87 (0.83-0.91) 8.84E-09 6.57E-08

17 ERBB2 rs1810132 35119531 C T 0.69 0.85 (0.8-0.9) 1.29E-07 2.16E-09 0.98 (0.9-1.07) 6.00E-01 6.05E-01 0.89 (0.85-0.93) 4.03E-06 1.16E-07

17 rs4252627 35122241 C T 0.66 0.85 (0.8-0.9) 2.91E-08 2.91E-08 1 (0.91-1.1) 9.92E-01 8.05E-01 0.88 (0.84-0.93) 1.97E-06 1.01E-05

17 ZNFN1A3 rs907092 35175785 G A 0.46 0.78 (0.74-0.82) 4.49E-20 4.49E-20 1.02 (0.94-1.1) 7.02E-01 6.91E-01 0.84 (0.8-0.88) 5.59E-14 8.53E-14

17 ZNFN1A3 rs9303277 35229995 C T 0.51 0.78 (0.74-0.82) 4.62E-21 4.62E-21 0.99 (0.91-1.09) 8.87E-01 9.51E-01 0.82 (0.79-0.86) 1.62E-16 2.52E-15

17 ZPBP2 rs12150079 35278943 G A 0.32 0.8 (0.75-0.85) 5.43E-14 2.20E-14 1.04 (0.95-1.13) 3.74E-01 3.74E-01 0.87 (0.83-0.91) 1.08E-08 5.02E-09

17 ZPBP2 rs11557467 35282160 G T 0.50 0.78 (0.74-0.82) 1.30E-20 1.30E-20 0.99 (0.91-1.09) 9.02E-01 9.34E-01 0.83 (0.79-0.87) 1.06E-15 4.82E-15

17 ZPBP2 rs2872507 35294289 G A 0.46 0.77 (0.73-0.81) 1.20E-21 1.20E-21 1.04 (0.95-1.13) 4.42E-01 3.92E-01 0.83 (0.8-0.87) 7.17E-15 5.52E-14

17 GSDMB rs8067378 35304874 A G 0.50 0.78 (0.74-0.82) 4.54E-21 4.54E-21 0.99 (0.91-1.08) 8.49E-01 8.79E-01 0.83 (0.79-0.87) 2.75E-16 1.61E-15

17 GSDMB rs2305480 35315722 G A 0.45 0.76 (0.72-0.81) 6.45E-23 6.45E-23 1.03 (0.94-1.13) 4.98E-01 4.33E-01 0.82 (0.79-0.86) 3.34E-16 5.68E-15

17 GSDMB rs2290400 35319766 T C 0.50 0.77 (0.73-0.82) 7.43E-19 1.78E-21 0.99 (0.9-1.09) 8.52E-01 9.00E-01 0.83 (0.79-0.87) 1.37E-14 9.09E-16

17 GSDMB rs7216389 35323475 C T 0.50 1.3 (1.23-1.37) 5.00E-20 3.42E-22 1 (0.9-1.11) 9.79E-01 8.39E-01 1.23 (1.17-1.29) 4.86E-16 1.29E-15

17 ORMDL3 rs3744246 35337876 T C 0.79 1.21 (1.13-1.29) 2.87E-08 2.87E-08 0.9 (0.77-1.06) 2.02E-01 2.97E-02 1.16 (1.09-1.23) 4.17E-06 6.00E-04

17 ORMDL3 rs4795405 35341943 T C 0.55 1.29 (1.23-1.36) 5.24E-21 5.24E-21 0.97 (0.88-1.08) 6.19E-01 4.40E-01 1.22 (1.16-1.28) 3.24E-16 1.01E-13

17 ORMDL3 rs8079416 35346239 T C 0.45 1.26 (1.19-1.32) 2.54E-17 2.54E-17 1.04 (0.96-1.12) 3.65E-01 3.65E-01 1.19 (1.13-1.24) 3.53E-14 3.53E-14

17 GSDM1 rs1007654 35364880 A G 0.63 1.24 (1.17-1.31) 2.90E-14 2.90E-14 0.97 (0.89-1.05) 4.07E-01 4.07E-01 1.15 (1.1-1.2) 3.66E-09 3.66E-09

17 GSDM1 rs7219080 35368042 A C 0.63 1.24 (1.17-1.31) 4.68E-14 4.68E-14 0.97 (0.89-1.06) 4.88E-01 4.88E-01 1.15 (1.1-1.2) 3.33E-09 3.33E-09

17 GSDM1 rs3902025 35372780 G T 0.56 1.25 (1.18-1.32) 6.35E-16 6.35E-16 0.98 (0.9-1.06) 6.07E-01 6.07E-01 1.16 (1.11-1.21) 9.62E-11 9.62E-11

17 GSDM1 rs3894194 35375519 G A 0.45 1.26 (1.19-1.33) 2.98E-17 2.98E-17 1.02 (0.94-1.11) 5.95E-01 5.95E-01 1.18 (1.13-1.23) 1.95E-13 1.95E-13

17 GSDM1 rs3859192 35382174 C T 0.46 1.22 (1.15-1.28) 2.22E-13 2.22E-13 1.04 (0.96-1.13) 3.29E-01 3.29E-01 1.16 (1.11-1.21) 2.20E-11 2.20E-11

17 PSMD3 rs8075668 35391149 C T 0.46 0.85 (0.8-0.89) 4.81E-10 4.81E-10 0.95 (0.88-1.03) 2.43E-01 2.43E-01 0.88 (0.84-0.92) 4.95E-09 4.95E-09

17 PSMD3 rs12453334 35406999 C T 0.37 0.83 (0.78-0.88) 9.60E-10 9.60E-10 1 (0.91-1.09) 9.49E-01 9.49E-01 0.88 (0.84-0.92) 2.63E-07 2.63E-07

17 PSMD3 rs8070454 35414280 C T 0.38 1.16 (1.1-1.22) 6.60E-08 6.60E-08 1.02 (0.93-1.11) 7.01E-01 7.01E-01 1.12 (1.07-1.17) 1.99E-06 1.99E-06

17 THRAP4 rs9916158 35435755 G T 0.38 0.84 (0.8-0.89) 1.54E-09 1.54E-09 0.97 (0.89-1.05) 4.80E-01 4.80E-01 0.88 (0.84-0.92) 5.75E-08 5.75E-08

17 THRAP4 rs11078936 35451440 T C 0.37 0.84 (0.8-0.89) 1.24E-09 1.24E-09 0.96 (0.88-1.04) 2.92E-01 2.92E-01 0.88 (0.84-0.92) 1.67E-08 1.67E-08

22 IL2RB rs2284033 35863980 G A 0.44 0.92 (0.87-0.97) 1.62E-03 1.62E-03 0.86 (0.8-0.94) 4.16E-04 4.16E-04 0.9 (0.86-0.94) 4.83E-06 4.83E-06

Ref =Reference allele, Alt=Alternate allele; the alternate allele is the risk allele

Supplementary Table 1

Markers showing genome-wide significance association with asthma in at least one group and using either random or fixed effects model

chr gene rs position

Ref

allele

Alt

allele

Alt.

allele

freq.

OR (95% CI) P_random P_fixed OR (95% CI) P_random P_fixed OR (95% CI) P_random P_fixed

Childhood onset asthma

Later onset asthma

Childhood onset asthma

+ Later onset asthma

The allele frequency is shown for the alternate allele

OR (95% CI) = odds-ratio and 95% confidence interval computed with alternate allele as risk allele using random effects model

P_random and P_fixed are respectively the P-values for test of association of marker with disease using random or fixed effects model respectively

The threshold for genome-wide significance was 7.2xE-08 ; we also included SNPs that satisfied the less stringent WTCCC threshold of 5xE-07

Supplementary Table 1

Markers showing genome-wide significance association with asthma in at least one group and using either random or fixed effects model

OR (95% CI) P_random P_fixed OR (95% CI) P_random P_fixed OR (95% CI) P_random P_fixed Phet df OR (95% CI) P_random P_fixed Phet df

0.79 (0.67-0.93) 4.64E-03 4.64E-03 0.82 (0.62-1.07) 1.49E-01 1.49E-01 0.84 (0.79-0.9) 1.15E-06 2.50E-08 1.93E-01 31 0.84 (0.79-0.9) 2.16E-07 8.72E-09 2.41E-01 34

0.75 (0.64-0.89) 6.72E-04 6.72E-04 0.82 (0.55-1.22) 3.22E-01 7.76E-02 0.83 (0.77-0.89) 4.70E-07 4.72E-10 8.99E-02 31 0.83 (0.77-0.89) 2.03E-07 1.00E-10 7.44E-02 35

0.76 (0.68-0.85) 1.45E-06 1.45E-06 0.92 (0.77-1.1) 3.60E-01 3.27E-01 0.87 (0.83-0.91) 1.02E-08 6.15E-12 1.47E-01 31 0.87 (0.83-0.91) 5.10E-09 4.84E-12 1.67E-01 35

0.76 (0.68-0.85) 1.41E-06 1.41E-06 0.92 (0.77-1.1) 3.53E-01 3.21E-01 0.87 (0.83-0.91) 1.96E-08 1.07E-11 1.38E-01 31 0.87 (0.83-0.91) 9.32E-09 8.12E-12 1.59E-01 35

0.76 (0.68-0.85) 1.45E-06 1.45E-06 0.92 (0.77-1.1) 3.60E-01 3.27E-01 0.87 (0.83-0.91) 1.37E-08 7.05E-12 1.38E-01 31 0.87 (0.83-0.91) 6.84E-09 5.55E-12 1.58E-01 35

0.76 (0.68-0.85) 1.05E-06 1.05E-06 0.92 (0.77-1.09) 3.31E-01 3.18E-01 0.87 (0.83-0.91) 7.71E-09 4.57E-12 1.56E-01 31 0.87 (0.83-0.91) 3.41E-09 3.52E-12 1.81E-01 35

0.81 (0.7-0.94) 5.44E-03 3.13E-04 0.91 (0.77-1.07) 2.35E-01 2.35E-01 0.89 (0.85-0.93) 3.34E-07 1.99E-08 2.87E-01 31 0.89 (0.86-0.93) 4.83E-08 9.78E-09 3.73E-01 35

0.81 (0.71-0.94) 3.75E-03 2.61E-04 0.91 (0.77-1.07) 2.35E-01 2.35E-01 0.89 (0.85-0.93) 2.34E-07 1.56E-08 2.99E-01 31 0.89 (0.86-0.93) 3.18E-08 7.69E-09 3.87E-01 35

0.81 (0.71-0.94) 4.09E-03 2.75E-04 0.91 (0.77-1.07) 2.35E-01 2.35E-01 0.89 (0.85-0.93) 2.01E-07 1.53E-08 3.08E-01 31 0.89 (0.86-0.93) 2.65E-08 7.53E-09 3.97E-01 35

0.81 (0.7-0.93) 2.31E-03 1.51E-04 0.92 (0.78-1.08) 3.22E-01 3.22E-01 0.89 (0.85-0.93) 7.96E-08 7.90E-09 3.31E-01 31 0.89 (0.86-0.93) 1.02E-08 5.19E-09 4.32E-01 35

0.81 (0.71-0.93) 2.22E-03 1.55E-04 0.92 (0.78-1.08) 3.22E-01 3.22E-01 0.89 (0.85-0.93) 1.19E-07 8.77E-09 3.12E-01 31 0.89 (0.86-0.93) 1.62E-08 5.75E-09 4.12E-01 35

1.43 (0.94-2.18) 9.09E-02 2.71E-05 1.03 (0.85-1.24) 7.69E-01 7.69E-01 1.16 (1.08-1.24) 2.09E-05 1.37E-10 3.95E-03 31 1.15 (1.08-1.22) 2.26E-05 3.03E-10 6.02E-03 35

0.89 (0.8-0.99) 2.63E-02 2.63E-02 0.93 (0.79-1.1) 4.10E-01 4.10E-01 0.9 (0.86-0.94) 2.83E-07 2.83E-07 7.38E-01 31 0.9 (0.87-0.94) 2.20E-07 2.20E-07 8.30E-01 35

1.24 (1.09-1.41) 1.33E-03 1.33E-03 0.89 (0.58-1.37) 6.03E-01 8.59E-01 1.15 (1.08-1.21) 1.67E-06 4.86E-08 1.78E-01 31 1.13 (1.07-1.2) 3.57E-05 1.33E-07 4.82E-02 35

1.23 (1.08-1.4) 1.37E-03 1.37E-03 0.89 (0.6-1.32) 5.61E-01 7.67E-01 1.15 (1.1-1.22) 8.30E-08 5.13E-09 2.72E-01 31 1.14 (1.08-1.21) 4.34E-06 1.89E-08 9.21E-02 35

1.22 (1.07-1.39) 2.31E-03 2.31E-03 0.91 (0.61-1.34) 6.20E-01 8.99E-01 1.15 (1.09-1.21) 1.52E-07 1.34E-08 2.86E-01 31 1.14 (1.08-1.2) 4.69E-06 3.75E-08 1.12E-01 35

0.78 (0.68-0.9) 5.43E-04 2.48E-04 1.08 (0.8-1.47) 6.05E-01 6.48E-01 0.86 (0.82-0.91) 3.14E-09 3.14E-09 5.10E-01 31 0.87 (0.83-0.92) 1.40E-07 1.36E-08 3.32E-01 35

0.78 (0.69-0.89) 2.54E-04 2.54E-04 1.04 (0.77-1.41) 7.84E-01 8.65E-01 0.86 (0.82-0.91) 1.50E-08 6.74E-09 4.22E-01 31 0.87 (0.83-0.92) 2.77E-07 1.95E-08 3.05E-01 35

0.92 (0.8-1.05) 2.04E-01 2.04E-01 1.03 (0.67-1.57) 9.05E-01 8.43E-01 1.13 (1.06-1.21) 4.61E-04 8.80E-06 4.60E-02 25 1.13 (1.05-1.21) 5.36E-04 1.04E-05 4.61E-02 27

1.07 (0.91-1.26) 4.05E-01 4.05E-01 1.17 (1.12-1.23) 3.98E-10 1.43E-10 4.01E-01 25 1.16 (1.11-1.22) 1.68E-10 1.68E-10 4.70E-01 29

1.37 (1.12-1.67) 2.01E-03 2.01E-03 1.09 (0.92-1.28) 3.20E-01 3.20E-01 1.19 (1.14-1.25) 6.97E-14 6.41E-14 4.61E-01 28 1.18 (1.13-1.24) 6.95E-14 6.95E-14 4.97E-01 32

1.26 (1.02-1.56) 3.55E-02 4.40E-03 1.12 (0.89-1.4) 3.35E-01 3.35E-01 1.16 (1.08-1.24) 2.48E-05 8.33E-08 2.74E-02 31 1.16 (1.08-1.23) 1.04E-05 5.35E-08 4.75E-02 35

1.23 (1.03-1.47) 2.03E-02 6.75E-03 1.12 (0.89-1.4) 3.49E-01 3.49E-01 1.16 (1.09-1.24) 1.32E-05 5.24E-08 4.10E-02 31 1.16 (1.09-1.23) 5.78E-06 3.50E-08 6.62E-02 35

0.92 (0.82-1.03) 1.31E-01 1.31E-01 1.09 (0.91-1.31) 3.27E-01 3.27E-01 0.87 (0.82-0.93) 1.93E-05 1.21E-09 3.32E-03 31 0.89 (0.84-0.94) 1.49E-04 1.34E-08 1.52E-03 35

1.13 (0.98-1.29) 8.28E-02 8.28E-02 1.12 (0.9-1.4) 3.19E-01 3.19E-01 1.21 (1.13-1.28) 4.41E-09 1.21E-11 1.47E-01 31 1.2 (1.13-1.27) 9.20E-10 8.71E-12 2.17E-01 35

0.84 (0.75-0.95) 4.08E-03 4.08E-03 1.02 (0.84-1.24) 8.20E-01 8.20E-01 0.83 (0.78-0.89) 1.96E-08 5.39E-15 8.14E-03 31 0.85 (0.79-0.9) 1.11E-07 4.03E-14 6.01E-03 35

0.85 (0.76-0.96) 6.43E-03 6.43E-03 1.01 (0.83-1.23) 9.24E-01 9.24E-01 0.83 (0.78-0.89) 2.33E-08 7.79E-15 6.94E-03 31 0.84 (0.79-0.9) 8.57E-08 4.53E-14 6.37E-03 35

0.86 (0.77-0.97) 1.10E-02 1.10E-02 1.02 (0.84-1.23) 8.73E-01 8.73E-01 0.84 (0.79-0.89) 3.17E-08 1.44E-14 8.57E-03 31 0.85 (0.8-0.9) 1.05E-07 8.99E-14 8.15E-03 35

1.14 (1.00-1.31) 5.86E-02 5.86E-02 1.07 (0.86-1.35) 5.38E-01 5.38E-01 1.22 (1.14-1.3) 2.11E-08 1.98E-12 5.96E-02 31 1.21 (1.13-1.29) 1.39E-08 2.81E-12 8.20E-02 35

1.06 (0.94-1.20) 3.43E-01 3.43E-01 1.25 (1.02-1.52) 3.14E-02 3.14E-02 1.14 (1.07-1.22) 4.58E-05 2.88E-07 2.02E-02 31 1.15 (1.08-1.22) 5.90E-06 3.99E-08 3.56E-02 35

0.91 (0.7-1.18) 4.69E-01 1.41E-01 0.87 (0.59-1.27) 4.58E-01 1.45E-01 0.85 (0.8-0.91) 3.31E-07 3.31E-07 9.12E-01 31 0.85 (0.8-0.9) 1.14E-07 1.14E-07 8.43E-01 35

All samples

(childhood onset + later onset + unknown onset + severe +

industrial asthma)

Severe asthma

Industrial asthma

Childhood onset asthma + Later onset asthma

+ Unknown onset asthma + Severe asthma

Supplementary Table 1

Markers showing genome-wide significance association with asthma in at least one group and using either random or fixed effects model

OR (95% CI) P_random P_fixed OR (95% CI) P_random P_fixed OR (95% CI) P_random P_fixed Phet df OR (95% CI) P_random P_fixed Phet df

All samples

(childhood onset + later onset + unknown onset + severe +

industrial asthma)

Severe asthma

Industrial asthma

Childhood onset asthma + Later onset asthma

+ Unknown onset asthma + Severe asthma

0.85 (0.76-0.94) 2.19E-03 2.19E-03 0.86 (0.73-1.02) 7.55E-02 7.55E-02 0.89 (0.86-0.93) 1.82E-08 1.82E-08 8.17E-01 31 0.89 (0.86-0.92) 3.93E-09 3.93E-09 8.52E-01 35

0.85 (0.77-0.94) 2.44E-03 2.44E-03 0.9 (0.76-1.07) 2.22E-01 2.22E-01 0.89 (0.86-0.93) 3.74E-08 3.74E-08 6.03E-01 31 0.89 (0.86-0.93) 1.74E-08 1.74E-08 6.69E-01 35

0.84 (0.75-0.94) 1.91E-03 1.91E-03 0.96 (0.8-1.14) 6.12E-01 6.12E-01 0.88 (0.84-0.92) 1.86E-09 1.03E-09 4.38E-01 31 0.88 (0.85-0.92) 1.45E-09 1.45E-09 5.02E-01 35

0.82 (0.73-0.92) 9.28E-04 9.28E-04 1.02 (0.85-1.23) 8.34E-01 8.34E-01 0.87 (0.83-0.91) 1.48E-09 6.29E-10 4.24E-01 31 0.88 (0.84-0.92) 2.36E-09 2.36E-09 4.75E-01 35

0.84 (0.75-0.94) 1.75E-03 1.75E-03 0.96 (0.8-1.14) 6.03E-01 6.03E-01 0.88 (0.84-0.92) 6.48E-09 9.64E-10 3.70E-01 30 0.88 (0.84-0.92) 2.77E-09 1.34E-09 4.33E-01 34

0.83 (0.75-0.93) 9.56E-04 9.56E-04 0.97 (0.81-1.15) 7.00E-01 7.00E-01 0.88 (0.84-0.92) 5.70E-09 3.99E-09 4.48E-01 29 0.88 (0.85-0.92) 6.69E-09 6.69E-09 5.33E-01 33

0.83 (0.74-0.93) 1.06E-03 1.06E-03 0.94 (0.78-1.12) 4.80E-01 4.80E-01 0.87 (0.83-0.91) 7.06E-09 3.81E-11 2.32E-01 31 0.87 (0.83-0.91) 1.20E-09 4.32E-11 3.23E-01 35

0.83 (0.74-0.93) 1.30E-03 1.30E-03 0.94 (0.79-1.13) 5.07E-01 5.07E-01 0.87 (0.83-0.91) 1.00E-08 3.14E-11 2.08E-01 31 0.87 (0.83-0.91) 2.44E-09 3.81E-11 2.83E-01 35

0.83 (0.75-0.93) 1.53E-03 1.53E-03 0.94 (0.79-1.13) 5.21E-01 5.21E-01 0.87 (0.83-0.91) 1.83E-08 4.84E-11 1.98E-01 30 0.87 (0.83-0.91) 4.53E-09 6.12E-11 2.74E-01 34

0.85 (0.7-1.03) 9.83E-02 9.83E-02 0.91 (0.77-1.08) 2.90E-01 2.90E-01 0.88 (0.84-0.93) 3.34E-06 1.04E-08 1.10E-01 30 0.88 (0.84-0.93) 6.44E-07 6.33E-09 1.81E-01 34

0.81 (0.72-0.9) 1.36E-04 1.36E-04 0.92 (0.78-1.1) 3.82E-01 3.82E-01 0.88 (0.83-0.92) 2.66E-07 1.55E-10 1.20E-01 31 0.88 (0.84-0.92) 2.92E-08 1.31E-10 2.15E-01 35

0.82 (0.74-0.92) 5.72E-04 5.72E-04 0.94 (0.79-1.12) 5.14E-01 5.14E-01 0.89 (0.84-0.94) 2.70E-05 4.60E-08 7.59E-02 29 0.89 (0.85-0.94) 6.70E-06 4.77E-08 1.53E-01 33

0.79 (0.71-0.88) 2.38E-05 2.38E-05 0.9 (0.77-1.06) 2.20E-01 2.20E-01 0.85 (0.8-0.9) 1.70E-08 5.36E-17 5.32E-03 31 0.85 (0.81-0.9) 2.35E-09 3.65E-17 1.26E-02 35

0.82 (0.74-0.91) 2.69E-04 2.69E-04 0.95 (0.8-1.11) 4.97E-01 4.97E-01 0.84 (0.8-0.89) 7.82E-09 1.06E-17 3.17E-03 31 0.85 (0.81-0.9) 4.05E-09 2.29E-17 5.66E-03 35

0.87 (0.78-0.98) 1.88E-02 1.88E-02 1.01 (0.84-1.21) 9.29E-01 9.29E-01 0.88 (0.82-0.93) 1.35E-05 5.77E-10 1.17E-02 31 0.88 (0.84-0.94) 1.71E-05 2.04E-09 2.04E-02 35

0.82 (0.74-0.91) 2.80E-04 2.80E-04 0.94 (0.8-1.11) 4.92E-01 4.92E-01 0.84 (0.8-0.89) 1.76E-09 1.18E-17 8.32E-03 31 0.85 (0.81-0.89) 9.47E-10 2.49E-17 1.31E-02 35

0.82 (0.74-0.92) 3.40E-04 3.40E-04 0.93 (0.79-1.09) 3.72E-01 3.72E-01 0.85 (0.8-0.91) 1.63E-07 4.54E-16 1.56E-03 31 0.86 (0.81-0.91) 4.82E-08 5.70E-16 3.84E-03 35

0.83 (0.74-0.92) 3.56E-04 3.56E-04 0.94 (0.8-1.11) 4.79E-01 4.79E-01 0.84 (0.8-0.89) 8.59E-10 4.93E-18 9.19E-03 31 0.85 (0.8-0.89) 4.42E-10 1.04E-17 1.48E-02 35

0.82 (0.73-0.91) 1.71E-04 1.71E-04 0.95 (0.81-1.12) 5.30E-01 5.30E-01 0.85 (0.8-0.9) 1.82E-07 3.31E-17 4.34E-04 31 0.85 (0.81-0.9) 9.64E-08 7.93E-17 9.21E-04 35

0.81 (0.73-0.9) 1.04E-04 9.28E-05 0.95 (0.81-1.12) 5.48E-01 5.48E-01 0.84 (0.79-0.89) 8.48E-09 9.77E-19 1.36E-03 31 0.85 (0.8-0.9) 6.58E-09 2.77E-18 1.86E-03 35

1.24 (1.1-1.4) 3.81E-04 8.69E-05 1.04 (0.88-1.23) 6.19E-01 6.19E-01 1.19 (1.11-1.26) 9.41E-08 2.66E-18 1.48E-04 31 1.18 (1.11-1.25) 8.50E-08 8.60E-18 1.72E-04 35

1.25 (1.09-1.42) 9.42E-04 9.42E-04 0.96 (0.77-1.19) 7.17E-01 7.17E-01 1.11 (1.03-1.19) 7.35E-03 2.20E-05 1.50E-03 31 1.1 (1.02-1.18) 8.92E-03 5.20E-05 3.30E-03 35

1.22 (1.1-1.36) 2.01E-04 2.01E-04 1.07 (0.91-1.26) 4.16E-01 4.16E-01 1.17 (1.1-1.25) 8.30E-07 6.20E-16 3.10E-04 31 1.16 (1.1-1.23) 3.13E-07 8.75E-16 7.57E-04 35

1.24 (1.12-1.38) 6.53E-05 6.53E-05 1.01 (0.82-1.24) 9.40E-01 9.40E-01 1.18 (1.13-1.24) 2.27E-11 1.12E-16 8.63E-02 31 1.17 (1.11-1.23) 4.89E-10 7.07E-16 4.80E-02 35

1.13 (1-1.28) 5.80E-02 3.79E-02 1.03 (0.87-1.22) 7.34E-01 7.34E-01 1.13 (1.07-1.2) 1.54E-05 3.48E-09 2.07E-02 31 1.12 (1.07-1.19) 1.30E-05 6.02E-09 2.99E-02 35

1.13 (1.01-1.26) 3.47E-02 3.47E-02 1.03 (0.87-1.23) 7.02E-01 7.02E-01 1.13 (1.07-1.19) 9.40E-06 2.95E-09 3.22E-02 31 1.13 (1.07-1.18) 7.81E-06 4.83E-09 4.35E-02 35

1.23 (1.1-1.36) 2.04E-04 2.04E-04 1.05 (0.88-1.27) 5.66E-01 5.71E-01 1.15 (1.09-1.21) 5.12E-07 2.13E-12 1.69E-02 31 1.14 (1.09-1.2) 5.13E-07 3.52E-12 1.82E-02 35

1.26 (1.13-1.4) 2.50E-05 2.50E-05 0.99 (0.77-1.28) 9.59E-01 9.20E-01 1.18 (1.12-1.24) 1.65E-10 1.50E-16 5.13E-02 31 1.17 (1.11-1.23) 4.59E-09 9.25E-16 2.01E-02 35

1.2 (1.08-1.33) 7.76E-04 7.76E-04 1.02 (0.81-1.28) 8.81E-01 9.89E-01 1.16 (1.11-1.21) 6.18E-13 2.35E-13 4.34E-01 31 1.15 (1.1-1.2) 1.46E-10 1.11E-12 2.78E-01 35

0.88 (0.8-0.98) 2.35E-02 2.35E-02 1.03 (0.88-1.21) 7.40E-01 7.40E-01 0.88 (0.84-0.92) 4.37E-10 4.37E-10 9.34E-01 31 0.89 (0.85-0.92) 2.34E-09 2.34E-09 8.78E-01 35

0.8 (0.65-0.99) 4.36E-02 4.36E-02 0.98 (0.83-1.16) 8.19E-01 8.19E-01 0.88 (0.84-0.92) 8.29E-08 8.29E-08 5.15E-01 25 0.89 (0.85-0.93) 1.73E-07 1.73E-07 5.95E-01 28

1.14 (1.03-1.27) 1.38E-02 1.38E-02 1.09 (0.85-1.39) 5.14E-01 3.66E-01 1.11 (1.07-1.16) 3.29E-07 3.29E-07 7.40E-01 31 1.11 (1.07-1.16) 2.28E-07 2.28E-07 6.72E-01 35

0.89 (0.80-1.00) 4.33E-02 4.33E-02 1 (0.85-1.18) 9.73E-01 9.73E-01 0.89 (0.85-0.92) 1.10E-08 1.10E-08 8.49E-01 31 0.89 (0.86-0.93) 3.13E-08 3.13E-08 8.81E-01 35

0.92 (0.82-1.03) 1.45E-01 1.45E-01 1.03 (0.87-1.22) 7.07E-01 7.07E-01 0.88 (0.85-0.92) 9.64E-09 9.64E-09 6.93E-01 31 0.89 (0.86-0.93) 4.39E-08 4.39E-08 6.43E-01 35

0.86 (0.77-0.95) 4.63E-03 4.63E-03 0.82 (0.7-0.97) 2.16E-02 2.16E-02 0.9 (0.86-0.93) 1.08E-07 1.08E-07 8.67E-01 31 0.89 (0.86-0.93) 1.15E-08 1.15E-08 9.23E-01 35

Supplementary Table 1

Markers showing genome-wide significance association with asthma in at least one group and using either random or fixed effects model

OR (95% CI) P_random P_fixed OR (95% CI) P_random P_fixed OR (95% CI) P_random P_fixed Phet df OR (95% CI) P_random P_fixed Phet df

All samples

(childhood onset + later onset + unknown onset + severe +

industrial asthma)

Severe asthma

Industrial asthma

Childhood onset asthma + Later onset asthma

+ Unknown onset asthma + Severe asthma

Supplementary Table 2

Effect of markers reaching the genome-wide significance level in either one of 2 groups (childhood onset or later onset asthma) and tests of heterogeneity within groups and

between groups

Difference

in mean

ORs

Chr Gene Marker Position Ref Alt

Alt

Freq

OR (95% CI)

P_random P_fixed

Phet

(Q test)

I2 (95% CI) OR (95% CI) P_random P_fixed

Phet

(Q test)

I2 (95%CI) P

2 IL1RL1 rs10204137 102334644 A G 0.38 0.85 (0.81-0.9) 1.53E-08 1.53E-08 6.68E-01 0 (0-48.9) 0.93 (0.84-1.03) 1.77E-01 8.53E-02 1.99E-01 26.5 (0-64.6) 9.55E-02

2 IL1RL1 rs10192157 102334788 C T 0.38 0.86 (0.81-0.9) 1.93E-08 1.93E-08 6.63E-01 0 (0-48.9) 0.93 (0.85-1.03) 1.85E-01 9.79E-02 2.20E-01 24.3 (0-63.3) 8.83E-02

2 IL1RL1 rs10206753 102334794 T C 0.38 0.85 (0.81-0.9) 1.27E-08 1.27E-08 6.59E-01 0 (0-48.9) 0.94 (0.85-1.03) 1.97E-01 1.01E-01 2.11E-01 25.3 (0-63.9) 7.98E-02

2 IL18R1 rs3771166 102352654 G A 0.38 0.85 (0.81-0.9) 1.12E-08 1.12E-08 6.98E-01 0 (0-48.9) 0.94 (0.85-1.04) 1.98E-01 9.69E-02 2.10E-01 25.3 (0-63.9) 8.08E-02

6 HLA-DQ rs17843604 32728261 C T 0.54 1.12 (1.06-1.19) 1.74E-04 1.74E-04 4.62E-01 0 (0-53.6) 1.28 (1.17-1.39) 1.14E-08 1.14E-08 7.15E-01 0 (0-62.3) 1.67E-02

6 rs9273349 32733847 T C 0.58 1.14 (1.08-1.22) 1.85E-05 6.01E-06 3.53E-01 8.6 (0-44.9) 1.26 (1.16-1.37) 3.92E-08 3.92E-08 8.46E-01 0 (0-62.3) 5.35E-02

9 IL33 rs1412426 6178652 A C 0.68 0.84 (0.77-0.92) 1.68E-04 1.46E-09 2.07E-03 55.0 (24.6-73.1) 0.92 (0.84-1.02) 1.08E-01 8.00E-02 2.83E-01 17.4 (0-58.4) 6.16E-02

9 IL33 rs1342326 6180076 A C 0.16 1.27 (1.17-1.38) 1.60E-08 3.34E-11 1.91E-01 21.6 (0-55.0) 1.12 (0.99-1.26) 6.75E-02 5.93E-02 3.23E-01 13.0 (0-54.2) 3.79E-02

9 IL33 rs992969 6199697 A G 0.75 0.81 (0.73-0.88) 5.72E-06 1.79E-12 3.70E-03 52.8 (20.4-72.0) 0.89 (0.8-0.99) 2.48E-02 1.43E-02 2.99E-01 15.6 (0-56.8) 6.46E-02

9 IL33 rs3939286 6200099 T C 0.75 0.8 (0.73-0.88) 7.13E-06 1.94E-12 2.61E-03 54.1 (23.0-72.7) 0.89 (0.8-0.98) 1.89E-02 1.19E-02 3.29E-01 12.3 (0-53.4) 7.03E-02

9 IL33 rs928413 6203387 G A 0.74 0.8 (0.74-0.88) 2.54E-06 8.77E-13 6.90E-03 50.1 (15.3-70.5) 0.89 (0.8-0.99) 2.82E-02 1.24E-02 2.34E-01 22.6 (0-62.2) 6.12E-02

9 IL33 rs2066362 6209176 G T 0.16 1.28 (1.16-1.4) 4.29E-07 1.85E-11 5.95E-02 36.1 (0-63.2) 1.13 (1-1.28) 4.55E-02 2.66E-02 2.97E-01 15.9 (0-57.1) 6.09E-02

17 STARD3 rs1877031 35067606 G A 0.66 0.85 (0.8-0.89) 3.65E-09 3.65E-09 8.89E-01 0 (0-48.9) 0.98 (0.89-1.08) 6.21E-01 7.27E-01 2.83E-01 17.4 (0-58.4) 3.53E-03

17 STARD3 rs2271308 35071008 T C 0.72 0.85 (0.8-0.9) 2.27E-08 2.27E-08 7.58E-01 0 (0-48.9) 0.97 (0.88-1.06) 4.91E-01 5.19E-01 3.90E-01 5.5 (0-64.4) 1.20E-02

17 TCAP rs931992 35074961 G T 0.66 0.84 (0.8-0.89) 1.66E-09 1.66E-09 8.77E-01 0 (0-48.9) 0.99 (0.9-1.09) 8.24E-01 9.30E-01 2.92E-01 16.9 (0-58.9) 1.65E-03

17 PERLD1 rs2941503 35082271 A G 0.70 0.84 (0.79-0.9) 8.65E-08 8.68E-10 2.71E-01 14.9 (0-50.3) 0.95 (0.87-1.04) 2.62E-01 2.62E-01 4.54E-01 0 (0-62.3) 1.69E-02

17 PERLD1 rs2941504 35084426 A G 0.70 0.84 (0.79-0.9) 1.01E-07 6.30E-10 2.57E-01 16.1 (0-51.2) 0.95 (0.88-1.04) 2.93E-01 2.93E-01 4.40E-01 0 (0-62.3) 1.33E-02

17 PERLD1 rs1565922 35084561 A G 0.70 0.84 (0.79-0.9) 1.26E-07 7.63E-10 2.53E-01 16.4 (0-51.4) 0.96 (0.87-1.05) 3.64E-01 3.74E-01 4.01E-01 4.0 (0-66.2) 1.45E-02

17 PERLD1 rs12150298 35088067 T C 0.66 0.84 (0.79-0.88) 1.74E-10 1.74E-10 5.75E-01 0 (0-48.9) 0.98 (0.89-1.09) 7.64E-01 9.31E-01 2.23E-01 23.9 (0-63.0) 6.74E-04

17 ERBB2 rs1810132 35119531 C T 0.69 0.85 (0.8-0.9) 1.29E-07 2.16E-09 2.86E-01 13.7 (0-49.3) 0.98 (0.9-1.07) 6.00E-01 6.05E-01 4.28E-01 1.1 (0-62.7) 4.64E-03

17 rs4252627 35122241 C T 0.66 0.85 (0.8-0.9) 2.91E-08 2.91E-08 4.95E-01 0 (0-51.0) 1 (0.91-1.1) 9.92E-01 8.05E-01 2.54E-01 20.5 (0-60.8) 7.58E-04

17 ZNFN1A3 rs907092 35175785 G A 0.46 0.78 (0.74-0.82) 4.49E-20 4.49E-20 7.63E-01 0 (0-48.9) 1.02 (0.94-1.1) 7.02E-01 6.91E-01 4.15E-01 2.6 (0-63.3) 8.58E-08

17 ZNFN1A3 rs9303277 35229995 C T 0.51 0.78 (0.74-0.82) 4.62E-21 4.62E-21 5.30E-01 0 (0-48.9) 0.99 (0.91-1.09) 8.87E-01 9.51E-01 2.73E-01 18.4 (0-59.3) 3.27E-07

17 ZPBP2 rs12150079 35278943 G A 0.32 0.8 (0.75-0.85) 5.43E-14 2.20E-14 4.31E-01 2.0 (0-49.9) 1.04 (0.95-1.13) 3.74E-01 3.74E-01 6.50E-01 0 (0-62.3) 5.86E-07

17 ZPBP2 rs11557467 35282160 G T 0.50 0.78 (0.74-0.82) 1.30E-20 1.30E-20 5.98E-01 0 (0-48.9) 0.99 (0.91-1.09) 9.02E-01 9.34E-01 3.47E-01 10.3 (0-50.7) 4.87E-07

17 ZPBP2 rs2872507 35294289 G A 0.46 0.77 (0.73-0.81) 1.20E-21 1.20E-21 9.32E-01 0 (0-48.9) 1.04 (0.95-1.13) 4.42E-01 3.92E-01 3.40E-01 11.2 (0-51.9) 2.48E-09

17 GSDML rs8067378 35304874 A G 0.50 0.78 (0.74-0.82) 4.54E-21 4.54E-21 6.31E-01 0 (0-48.9) 0.99 (0.91-1.08) 8.49E-01 8.79E-01 3.30E-01 12.2 (0-53.3) 5.03E-07

17 GSDML rs2305480 35315722 G A 0.45 0.76 (0.72-0.81) 6.45E-23 6.45E-23 8.56E-01 0 (0-48.9) 1.03 (0.94-1.13) 4.98E-01 4.33E-01 3.04E-01 15.1 (0-56.4) 1.34E-09

17 GSDML rs2290400 35319766 T C 0.50 0.77 (0.73-0.82) 7.43E-19 1.78E-21 3.38E-01 9.5 (0-45.2) 0.99 (0.9-1.09) 8.52E-01 9.00E-01 2.58E-01 20.1 (0-60.5) 3.46E-07

17 GSDML rs7216389 35323475 C T 0.50 1.3 (1.23-1.37) 5.00E-20 3.42E-22 3.62E-01 7.6 (0-42.6) 1 (0.9-1.11) 9.79E-01 8.39E-01 1.31E-01 34.6 (0-68.8) 4.44E-08

17 ORMDL3 rs3744246 35337876 T C 0.79 1.21 (1.13-1.29) 2.87E-08 2.87E-08 8.70E-01 0 (0-48.9) 0.9 (0.77-1.06) 2.02E-01 2.97E-02 3.19E-02 50.7 (0-76.0) 1.10E-06

17 ORMDL3 rs4795405 35341943 T C 0.55 1.29 (1.23-1.36) 5.24E-21 5.24E-21 7.99E-01 0 (0-48.9) 0.97 (0.88-1.08) 6.19E-01 4.40E-01 1.39E-01 33.5 (0-68.3) 6.44E-09

17 ORMDL3 rs8079416 35346239 T C 0.45 1.26 (1.19-1.32) 2.54E-17 2.54E-17 7.80E-01 0 (0-48.9) 1.04 (0.96-1.12) 3.65E-01 3.65E-01 5.40E-01 0 (0-62.3) 1.03E-04

17 GSDM1 rs1007654 35364880 A G 0.63 1.24 (1.17-1.31) 2.90E-14 2.90E-14 9.56E-01 0 (0-48.9) 0.97 (0.89-1.05) 4.07E-01 4.07E-01 5.05E-01 0 (0-62.3) 1.13E-06

17 GSDM1 rs7219080 35368042 A C 0.63 1.24 (1.17-1.31) 4.68E-14 4.68E-14 9.64E-01 0 (0-48.9) 0.97 (0.89-1.06) 4.88E-01 4.88E-01 5.15E-01 0 (0-62.3) 2.26E-06

17 GSDM1 rs3902025 35372780 G T 0.56 1.25 (1.18-1.32) 6.35E-16 6.35E-16 9.89E-01 0 (0-48.9) 0.98 (0.9-1.06) 6.07E-01 6.07E-01 4.72E-01 0 (0-62.3) 1.13E-06

17 GSDM1 rs3894194 35375519 G A 0.45 1.26 (1.19-1.33) 2.98E-17 2.98E-17 7.16E-01 0 (0-48.9) 1.02 (0.94-1.11) 5.95E-01 5.95E-01 4.67E-01 0 (0-62.3) 2.74E-05

17 GSDM1 rs3859192 35382174 C T 0.46 1.22 (1.15-1.28) 2.22E-13 2.22E-13 6.22E-01 0 (0-48.9) 1.04 (0.96-1.13) 3.29E-01 3.29E-01 9.39E-01 0 (0-62.3) 1.59E-03

Childhood onset asthma

Later onset asthma

1/2

Supplementary Table 2

Effect of markers reaching the genome-wide significance level in either one of 2 groups (childhood onset or later onset asthma) and tests of heterogeneity within groups and

between groups

Difference

in mean

ORs

Chr Gene Marker Position Ref Alt

Alt

Freq

OR (95% CI)

P_random P_fixed

Phet

(Q test)

I2 (95% CI) OR (95% CI) P_random P_fixed

Phet

(Q test)

I2 (95%CI) P

Childhood onset asthma

Later onset asthma

17 PSMD3 rs8075668 35391149 C T 0.46 0.85 (0.8-0.89) 4.81E-10 4.81E-10 8.83E-01 0 (0-48.9) 0.95 (0.88-1.03) 2.43E-01 2.43E-01 9.97E-01 0 (0-62.3) 1.51E-02

17 PSMD3 rs12453334 35406999 C T 0.37 0.83 (0.78-0.88) 9.60E-10 9.60E-10 8.58E-01 0 (0-52.2) 1 (0.91-1.09) 9.49E-01 9.49E-01 9.62E-01 0 (0-67.5) 9.57E-04

17 PSMD3 rs8070454 35414280 C T 0.38 1.16 (1.1-1.22) 6.60E-08 6.60E-08 9.37E-01 0 (0-48.9) 1.02 (0.93-1.11) 7.01E-01 7.01E-01 8.06E-01 0 (0-62.3) 9.54E-03

17 THRAP4 rs9916158 35435755 G T 0.38 0.84 (0.8-0.89) 1.54E-09 1.54E-09 8.66E-01 0 (0-48.9) 0.97 (0.89-1.05) 4.80E-01 4.80E-01 9.87E-01 0 (0-62.3) 6.05E-03

17 THRAP4 rs11078936 35451440 T C 0.37 0.84 (0.8-0.89) 1.24E-09 1.24E-09 7.50E-01 0 (0-48.9) 0.96 (0.88-1.04) 2.92E-01 2.92E-01 8.21E-01 0 (0-62.3) 1.30E-02

Ref =Reference allele, Alt=Alternate allele; the alternate allele is the risk allele

OR (95% CI) = odds-ratio and 95% confidence interval computed with alternate allele as risk allele using random effects model

P_random and P_fixed are respectively the P-values for test of association of marker with disease using random or fixed effects model respectively

Phet = P-value of Cochran's Q test for heterogeneity of ORs across studies within each of the 2 groups (childhood onset asthma or later onset asthma)

I2 (95% CI) = I2 describes the percentage of total study variance attributable to heterogeneity. Low values of I2 are consistent with sampling error.

2/2

Supplementary Table 3

Results of asthma meta-analysis for previously reported genes in subjects of European ancestry from genome-wide association studies and positional

cloning studies of asthma

Gene Marker Position P_random P_fixed P_random P_fixed P_random P_fixed

1 DENND1B rs2111930 195852855 C T 0.48 6.69E-01 6.69E-01 7.19E-01 7.19E-01 5.29E-01 5.29E-01 7.79E-01

1 DENND1B rs12127378 195867715 T C 0.21 7.11E-01 7.11E-01 7.51E-01 6.68E-01 7.82E-01 8.15E-01 2.83E-01

1 DENND1B rs12041661 195868291 C A 0.21 7.31E-01 7.31E-01 7.41E-01 6.46E-01 7.65E-01 7.93E-01 2.93E-01

1 DENND1B rs10442656 195873331 C T 0.21 7.65E-01 7.65E-01 7.44E-01 6.68E-01 8.25E-01 8.56E-01 3.19E-01

1 DENND1B rs16841842 195878305 C A 0.21 7.97E-01 8.64E-01 1.56E-01 1.56E-01 3.90E-01 3.48E-01 2.82E-01

1 DENND1B rs2477070 195879382 A G 0.21 6.87E-01 6.87E-01 7.01E-01 6.03E-01 7.89E-01 8.21E-01 2.79E-01

1 DENND1B rs6688289 195881681 C T 0.48 7.42E-01 7.42E-01 8.19E-01 8.19E-01 6.41E-01 6.41E-01 7.49E-01

1 DENND1B rs1747827 195882014 C T 0.21 7.69E-01 7.69E-01 7.09E-01 6.25E-01 7.36E-01 7.59E-01 3.32E-01

1 DENND1B rs2488389 195897764 G A 0.21 7.48E-01 8.12E-01 1.17E-01 1.17E-01 3.34E-01 2.92E-01 2.75E-01

1 DENND1B rs12117045 195905339 G A 0.21 7.93E-01 8.82E-01 1.40E-01 1.40E-01 3.69E-01 3.31E-01 2.72E-01

1 rs2488409 195911204 T C 0.79 5.08E-01 5.08E-01 8.23E-01 7.54E-01 9.91E-01 9.91E-01 4.60E-01

1 DENND1B rs12751508 195913167 C T 0.12 6.01E-01 5.45E-01 2.14E-01 2.14E-01 1.11E-01 1.11E-01 4.95E-01

1 DENND1B rs2488411 195925422 C T 0.79 7.33E-01 7.33E-01 7.47E-01 6.65E-01 8.33E-01 8.56E-01 3.45E-01

1 DENND1B rs6691216 195925886 T C 0.48 6.11E-01 6.11E-01 6.03E-01 6.03E-01 4.77E-01 4.77E-01 7.68E-01

1 DENND1B rs1891497 195926178 A G 0.79 6.82E-01 6.82E-01 7.41E-01 6.58E-01 8.04E-01 8.29E-01 3.21E-01

1 rs2477077 195937738 C T 0.21 8.67E-01 9.17E-01 1.31E-01 1.31E-01 6.52E-01 6.89E-01 1.90E-01

1 rs12354257 195940967 T C 0.30 8.63E-01 8.63E-01 8.75E-01 9.52E-01 5.23E-01 5.23E-01 5.75E-01

1 DENND1B rs12092948 195956590 T C 0.31 6.24E-01 6.19E-01 8.51E-01 8.93E-01 8.65E-01 8.09E-01 3.51E-01

1 DENND1B rs1747815 195964726 T C 0.80 7.19E-01 7.19E-01 4.16E-01 2.63E-01 5.49E-01 5.57E-01 2.94E-01

1 DENND1B rs2488401 195969024 C T 0.20 6.97E-01 7.95E-01 8.81E-02 8.81E-02 3.37E-01 2.82E-01 2.28E-01

1 DENND1B rs10922273 195991996 C T 0.11 6.44E-01 6.44E-01 2.44E-01 2.44E-01 7.17E-01 7.17E-01 7.32E-01

1 DENND1B rs1775454 195993921 T C 0.80 9.48E-01 9.48E-01 6.97E-01 5.72E-01 6.23E-01 6.24E-01 4.19E-01

1 DENND1B rs1775456 195999678 G A 0.80 9.47E-01 9.49E-01 5.59E-01 4.31E-01 5.55E-01 5.67E-01 3.26E-01

1 DENND1B rs1924518 196004950 A G 0.80 9.00E-01 9.00E-01 4.98E-01 4.17E-01 6.89E-01 6.89E-01 4.84E-01

1 DENND1B rs1775444 196007313 T C 0.80 9.11E-01 9.11E-01 5.16E-01 3.95E-01 5.67E-01 5.80E-01 3.32E-01

1 DENND1B rs1539414 196010129 G A 0.21 8.84E-01 9.99E-01 7.32E-02 6.36E-02 3.62E-01 3.27E-01 2.33E-01

1 DENND1B rs12081207 196013188 T C 0.49 6.36E-01 6.36E-01 4.76E-01 4.76E-01 4.39E-01 4.39E-01 7.62E-01

1 CHI3L1 rs7542294 201417799 G A 0.15 9.65E-02 9.65E-02 6.76E-01 6.76E-01 4.59E-01 4.59E-01 7.60E-01

1 CHI3L1 rs880633 201419424 T C 0.53 3.68E-03 3.68E-03 3.37E-01 3.52E-01 4.05E-02 4.05E-02 5.94E-01

1 CHI3L1 rs10399805 201422621 G A 0.13 1.65E-01 1.59E-01 9.66E-01 9.11E-01 3.84E-01 3.77E-01 3.36E-01

1 CHI3L1 rs946261 201424496 C T 0.63 6.88E-02 6.88E-02 4.93E-02 4.93E-02 4.25E-01 3.08E-01 2.49E-01

1 CHI3L1 rs946262 201424852 T C 0.80 1.53E-01 1.53E-01 7.12E-02 7.12E-02 3.01E-01 3.01E-01 7.21E-01

1 CHI3L1 rs10920579 201425595 A G 0.79 1.60E-01 1.60E-01 9.74E-02 9.74E-02 3.24E-01 3.24E-01 7.20E-01

1 CHI3L1 rs7541061 201429990 A C 0.79 1.69E-01 1.69E-01 1.01E-01 1.00E-01 2.96E-01 2.96E-01 6.79E-01

1 CHI3L1 rs12123883 201431465 T C 0.08 9.96E-02 9.96E-02 3.57E-01 7.19E-01 2.92E-01 2.94E-01 3.64E-01

1 CHI3L1 rs946263 201432004 G A 0.82 2.74E-01 2.74E-01 2.62E-01 2.54E-01 2.62E-01 2.62E-01 6.44E-01

1 CHI3L1 rs2486064 201435387 T C 0.58 2.16E-01 2.16E-01 6.05E-01 6.05E-01 3.25E-01 3.25E-01 7.43E-01

1 CHI3L1 rs2886117 201435504 G A 0.13 9.84E-02 9.84E-02 5.16E-01 5.34E-01 4.01E-01 3.99E-01 4.57E-01

1 CHI3L1 rs872129 201436014 A G 0.10 1.55E-01 1.55E-01 6.82E-01 6.82E-01 1.28E-01 1.28E-01 7.48E-01

1 CHIT1 rs2486949 201439979 T C 0.49 2.19E-02 2.19E-02 1.09E-01 1.09E-01 8.83E-02 8.83E-02 7.56E-01

1 CHIT1 rs12042412 201440279 C T 0.04 2.32E-02 2.32E-02 6.18E-02 6.18E-02 3.20E-01 1.54E-01 1.45E-01

1 CHIT1 rs883389 201440809 C T 0.27 4.24E-01 4.24E-01 7.09E-02 7.09E-02 9.75E-01 9.32E-01 4.05E-01

1 CHIT1 rs2494281 201446566 A G 0.49 2.04E-02 2.04E-02 1.08E-01 1.08E-01 7.59E-02 7.59E-02 8.33E-01

1 CHIT1 rs12141375 201447985 C A 0.20 1.27E-01 1.07E-01 5.82E-01 5.82E-01 1.58E-01 1.19E-01 2.65E-01

1 CHIT1 rs4950937 201448915 G A 0.29 2.75E-01 2.75E-01 1.17E-01 1.15E-01 7.80E-01 7.37E-01 3.87E-01

1 CHIT1 rs17466945 201449716 T G 0.12 7.72E-01 7.72E-01 6.71E-01 6.71E-01 8.08E-01 8.08E-01 7.65E-01

1 CHIT1 rs17532442 201451741 C T 0.08 6.16E-01 6.16E-01 7.17E-01 7.17E-01 9.93E-01 9.93E-01 7.92E-01

1 CHIT1 rs2486961 201458527 C T 0.17 2.86E-01 2.86E-01 5.42E-01 5.57E-01 8.99E-02 8.99E-02 6.21E-01

1 CHIT1 rs2486962 201458543 G A 0.49 1.82E-02 1.82E-02 6.21E-02 6.21E-02 5.54E-02 5.54E-02 5.42E-01

1 CHIT1 rs3820145 201458760 T C 0.19 1.15E-01 6.50E-02 2.10E-02 1.24E-02 6.55E-01 4.06E-01 2.01E-02

1 CHIT1 rs3766539 201459884 T C 0.09 7.72E-01 7.72E-01 8.05E-01 8.05E-01 6.90E-01 6.90E-01 8.27E-01

1 CHIT1 rs2297950 201460809 C T 0.31 1.12E-01 1.12E-01 2.67E-02 2.40E-02 6.29E-01 4.58E-01 1.22E-01

1 CHIT1 rs1340237 201462904 C T 0.26 1.42E-01 1.42E-01 1.65E-01 1.65E-01 2.41E-01 1.68E-01 2.90E-01

1 CHIT1 rs2486072 201463880 T G 0.36 1.34E-01 7.76E-02 1.21E-01 1.21E-01 3.16E-01 2.09E-01 1.08E-01

1 CHIT1 rs17533071 201466819 T C 0.41 1.26E-01 1.15E-01 1.15E-01 1.17E-01 8.87E-01 8.27E-01 3.38E-01

1 CHIT1 rs6672661 201467879 G A 0.38 4.45E-01 2.94E-01 9.61E-01 9.61E-01 6.92E-01 5.39E-01 7.84E-02

1 CHIT1 rs1340239 201469508 A G 0.94 9.04E-01 9.04E-01 5.52E-01 5.52E-01 9.15E-01 9.15E-01 7.31E-01

1 CHIT1 rs2494283 201469525 T C 0.89 1.83E-01 1.83E-01 2.70E-01 2.70E-01 1.80E-01 1.80E-01 8.79E-01

1 CHIT1 rs2494287 201474143 T C 0.89 1.73E-01 1.73E-01 2.63E-01 2.63E-01 1.51E-01 1.51E-01 8.89E-01

1 CHIT1 rs7547716 201476104 T G 0.03 7.71E-01 7.71E-01 5.89E-01 5.89E-01 9.25E-01 9.25E-01 8.86E-01

1 CHIT1 rs2494295 201484799 A G 0.43 9.37E-01 9.04E-01 8.16E-02 8.16E-02 5.18E-01 5.18E-01 5.47E-01

Chromosome

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset +

severe + industrial

asthma)

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

Supplementary Table 3

Results of asthma meta-analysis for previously reported genes in subjects of European ancestry from genome-wide association studies and positional

cloning studies of asthma

Gene Marker Position P_random P_fixed P_random P_fixed P_random P_fixed

Chromosome

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset +

severe + industrial

asthma)

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

1 CHIT1 rs2486948 201488731 G A 0.84 8.17E-02 8.17E-02 1.52E-01 1.52E-01 8.42E-02 9.55E-02 3.38E-01

1 BTG2 rs6427997 201505330 C A 0.33 7.68E-01 4.82E-01 3.19E-01 3.19E-01 7.77E-01 9.25E-01 2.25E-01

1 BTG2 rs7551146 201510736 C T 0.03 6.17E-01 6.17E-01 5.17E-01 5.17E-01 9.80E-01 9.80E-01 8.48E-01

1 BTG2 rs2494302 201511837 A G 0.05 4.29E-01 4.29E-01 9.74E-01 9.74E-01 5.56E-01 5.56E-01 7.43E-01

1 BTG2 rs871850 201519849 C T 0.52 1.77E-01 1.25E-01 6.16E-01 6.16E-01 4.14E-01 4.06E-01 3.98E-01

1 BTG2 rs2494279 201522441 T C 0.03 6.54E-01 6.54E-01 3.68E-01 3.68E-01 8.62E-01 8.62E-01 8.21E-01

1 BTG2 rs4971226 201523423 T G 0.56 4.09E-01 2.83E-01 3.63E-01 3.63E-01 7.36E-01 7.36E-01 5.14E-01

1 BTG2 rs4483473 201528068 A C 0.51 1.85E-01 1.36E-01 6.77E-01 6.77E-01 4.06E-01 3.99E-01 3.83E-01

1 OPN3 rs650833 239828284 T C 0.91 5.96E-01 5.96E-01 2.25E-01 2.25E-01 5.80E-01 5.80E-01 7.91E-01

1 OPN3 rs613032 239839044 A G 0.10 8.95E-01 8.95E-01 6.74E-01 6.74E-01 8.06E-01 8.06E-01 5.98E-01

1 OPN3 rs672477 239843124 T G 0.18 6.19E-01 6.19E-01 7.45E-01 7.45E-01 8.85E-01 8.85E-01 6.82E-01

1 CHML rs587640 239856771 A G 0.66 9.76E-01 9.40E-01 8.42E-01 8.42E-01 5.28E-01 5.32E-01 4.17E-01

1 CHML rs3737604 239865254 C T 0.35 6.11E-01 5.99E-01 1.92E-01 1.87E-01 3.45E-01 3.46E-01 3.17E-01

1 OPN3 rs12141693 239871489 T C 0.07 9.31E-01 9.31E-01 4.71E-01 2.34E-01 6.81E-01 6.62E-01 4.17E-01

1 OPN3 rs6656762 239875034 T G 0.07 1.36E-01 1.36E-01 3.64E-01 2.44E-01 3.77E-01 3.47E-01 5.09E-02

1 OPN3 rs663814 239876209 T C 0.38 4.72E-01 4.43E-01 3.59E-01 3.59E-01 3.55E-01 3.55E-01 6.57E-01

1 OPN3 rs12125060 239879618 C T 0.26 5.62E-01 5.62E-01 2.22E-01 1.50E-01 3.88E-01 4.03E-01 2.54E-01

1 OPN3 rs10802975 239880394 T C 0.83 6.64E-01 5.48E-01 2.55E-01 1.29E-01 6.86E-01 8.66E-01 3.45E-02

1 OPN3 rs12130136 239883852 C A 0.38 5.62E-01 5.62E-01 4.56E-02 4.56E-02 3.80E-01 3.80E-01 7.27E-01

1 OPN3 rs7416113 239888805 T C 0.26 4.82E-01 4.82E-01 9.29E-03 7.28E-03 8.83E-01 8.83E-01 8.93E-01

2 DPP10 rs1549775 114684697 A C 0.21 9.02E-01 8.68E-01 1.67E-01 1.67E-01 6.56E-01 6.67E-01 4.51E-01

2 DPP10 rs11902588 114686122 G T 0.03 4.57E-01 4.57E-01 2.75E-01 2.75E-01 9.19E-02 9.19E-02 8.17E-01

2 DPP10 rs13018007 114688383 A G 0.08 6.58E-01 5.88E-01 8.34E-01 8.63E-01 7.14E-01 4.31E-01 1.71E-01

2 DPP10 rs3132030 114688994 G A 0.95 7.97E-01 7.97E-01 2.78E-01 2.78E-01 9.41E-01 9.41E-01 6.28E-01

2 DPP10 rs3105495 114693448 T C 0.90 2.39E-01 2.39E-01 3.74E-01 2.81E-01 2.58E-01 2.61E-01 4.48E-01

2 DPP10 rs2419782 114696927 T C 0.06 7.80E-01 7.80E-01 7.27E-01 7.54E-01 6.97E-01 6.48E-01 3.69E-01

2 DPP10 rs3105491 114697437 G T 0.72 6.00E-01 5.94E-01 9.61E-01 9.35E-01 6.73E-01 6.71E-01 4.46E-01

2 DPP10 rs3105489 114700560 T G 0.91 2.38E-01 2.38E-01 8.43E-02 8.43E-02 3.72E-01 3.72E-01 5.80E-01

2 DPP10 rs4849321 114709319 G A 0.17 9.96E-01 9.96E-01 4.57E-01 4.18E-01 9.81E-01 9.81E-01 6.07E-01

2 DPP10 rs1505437 114716175 A G 0.28 3.83E-01 2.84E-01 9.10E-01 9.10E-01 3.00E-01 3.00E-01 5.66E-01

2 DPP10 rs4849322 114721149 T C 0.17 7.16E-01 7.16E-01 4.31E-01 4.31E-01 8.93E-01 8.93E-01 7.54E-01

2 DPP10 rs1847694 114721604 A G 0.34 1.95E-01 1.95E-01 4.75E-01 2.21E-01 9.99E-02 6.63E-02 1.37E-01

2 DPP10 rs1505438 114724500 C T 0.34 3.83E-01 3.04E-01 6.65E-01 6.65E-01 2.65E-01 2.65E-01 7.14E-01

2 DPP10 rs1001131 114726876 A G 0.11 3.26E-01 3.29E-01 2.58E-01 2.58E-01 2.12E-01 2.12E-01 6.36E-01

2 DPP10 rs3132055 114734500 A G 0.06 9.33E-01 9.33E-01 7.24E-01 7.24E-01 7.77E-01 7.77E-01 8.51E-01

2 DPP10 rs882575 114734725 T C 0.30 4.80E-01 3.89E-01 9.44E-01 9.44E-01 3.88E-01 3.88E-01 4.87E-01

2 DPP10 rs3115347 114737312 C T 0.06 7.38E-01 7.38E-01 5.81E-01 5.81E-01 8.79E-01 8.79E-01 8.57E-01

2 DPP10 rs3132057 114740110 G A 0.57 9.35E-01 9.35E-01 7.67E-01 7.67E-01 9.28E-01 9.28E-01 5.71E-01

2 DPP10 rs13019275 114743055 G T 0.42 8.74E-01 8.74E-01 8.63E-01 8.63E-01 9.75E-01 9.75E-01 5.66E-01

2 DPP10 rs4516437 114759004 T C 0.58 9.99E-01 9.99E-01 6.83E-01 6.83E-01 9.15E-01 9.15E-01 5.81E-01

2 DPP10 rs6542199 114759648 G A 0.58 9.68E-01 9.68E-01 6.74E-01 6.74E-01 9.32E-01 9.32E-01 5.75E-01

2 DPP10 rs4425086 114774133 A G 0.58 9.75E-01 9.75E-01 6.34E-01 6.34E-01 9.16E-01 9.16E-01 5.76E-01

2 DPP10 rs4491737 114805057 G A 0.11 4.05E-01 4.18E-01 1.54E-01 1.54E-01 2.39E-01 2.39E-01 6.96E-01

2 DPP10 rs11123239 114811958 G A 0.30 9.66E-01 9.66E-01 8.67E-01 8.67E-01 7.44E-01 7.44E-01 6.81E-01

2 DPP10 rs6719696 114820213 T C 0.56 5.89E-01 5.89E-01 7.40E-01 7.40E-01 7.64E-01 7.64E-01 6.43E-01

2 DPP10 rs13014575 114821424 A G 0.19 7.58E-01 6.94E-01 4.30E-01 4.91E-01 6.66E-01 7.56E-01 4.85E-02

2 DPP10 rs17710829 114827547 T C 0.06 3.57E-01 4.63E-01 4.84E-01 4.93E-01 1.70E-01 1.75E-01 2.52E-01

2 DPP10 rs7593179 114829013 G A 0.84 4.14E-01 3.79E-01 9.22E-02 9.22E-02 1.72E-01 1.44E-01 2.98E-01

2 DPP10 rs12618741 114834542 C T 0.30 9.08E-01 9.08E-01 7.43E-01 6.35E-01 6.47E-01 6.47E-01 6.66E-01

2 DPP10 rs7557299 114842205 A G 0.33 6.10E-01 6.10E-01 3.96E-01 4.18E-01 8.16E-01 8.39E-01 3.52E-01

2 DPP10 rs4490198 114880929 G A 0.58 2.77E-01 2.77E-01 2.64E-01 2.63E-01 3.32E-01 3.32E-01 5.64E-01

2 DPP10 rs6752229 114888714 T C 0.63 7.46E-01 7.46E-01 7.91E-01 8.70E-01 7.70E-01 7.70E-01 5.75E-01

2 DPP10 rs11123242 114897519 T C 0.82 2.13E-01 2.13E-01 4.04E-01 4.04E-01 1.17E-01 1.12E-01 4.47E-01

2 DPP10 rs11898348 114901591 C T 0.19 3.04E-01 3.04E-01 9.68E-01 9.68E-01 3.51E-01 3.51E-01 9.57E-01

2 DPP10 rs13014858 114909360 A G 0.57 1.90E-01 1.90E-01 3.49E-01 3.09E-01 1.24E-01 1.24E-01 6.34E-01

2 DPP10 rs982214 114915818 G A 0.64 1.72E-01 1.15E-01 3.01E-01 3.01E-01 9.05E-02 4.89E-02 1.63E-01

2 DPP10 rs982213 114915936 T G 0.64 1.80E-01 1.46E-01 3.71E-01 3.78E-01 1.24E-01 8.52E-02 2.40E-01

2 DPP10 rs1036022 114918599 G A 0.58 4.13E-01 4.13E-01 6.36E-01 7.27E-01 5.00E-01 5.00E-01 5.21E-01

2 DPP10 rs10208402 114920387 C T 0.51 2.99E-01 2.99E-01 2.92E-01 2.76E-01 1.73E-01 1.73E-01 5.76E-01

2 DPP10 rs1367178 114921492 A G 0.04 7.60E-02 7.60E-02 7.60E-02 7.60E-02 9.05E-01

Supplementary Table 3

Results of asthma meta-analysis for previously reported genes in subjects of European ancestry from genome-wide association studies and positional

cloning studies of asthma

Gene Marker Position P_random P_fixed P_random P_fixed P_random P_fixed

Chromosome

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset +

severe + industrial

asthma)

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

2 DPP10 rs17048359 114924950 T C 0.34 2.24E-01 2.24E-01 1.22E-01 1.22E-01 9.55E-02 9.07E-02 4.32E-01

2 DPP10 rs10192393 114925151 T C 0.36 8.81E-01 8.81E-01 1.94E-01 1.94E-01 4.38E-01 4.38E-01 8.65E-01

2 DPP10 rs12473953 114926064 T C 0.32 9.98E-01 9.98E-01 9.31E-01 9.31E-01 7.81E-01 7.81E-01 8.02E-01

2 DPP10 rs4849333 114926199 T C 0.27 6.07E-01 5.74E-01 3.59E-01 3.59E-01 3.71E-01 3.61E-01 4.40E-01

2 DPP10 rs1430090 114927112 A C 0.32 7.88E-01 7.65E-01 1.40E-01 1.39E-01 6.77E-01 6.45E-01 2.73E-01

2 DPP10 rs6737251 114930145 T C 0.69 8.89E-01 8.89E-01 2.89E-02 2.89E-02 7.38E-01 7.38E-01 5.95E-01

2 DPP10 rs4849335 114934024 A C 0.68 8.78E-01 8.78E-01 3.04E-02 3.04E-02 7.26E-01 7.26E-01 5.86E-01

2 DPP10 rs4849337 114935445 C T 0.62 7.61E-01 7.61E-01 1.04E-01 1.04E-01 6.63E-01 6.67E-01 4.21E-01

2 DPP10 rs17712682 114935998 G A 0.32 6.29E-01 6.29E-01 9.10E-01 7.14E-01 5.91E-01 5.91E-01 8.46E-01

2 DPP10 rs11685217 114939158 C T 0.19 2.70E-01 2.70E-01 9.05E-02 9.05E-02 1.83E-01 1.83E-01 7.86E-01

2 DPP10 rs7559909 114969758 G A 0.34 6.67E-01 6.67E-01 4.43E-01 4.43E-01 6.56E-01 6.56E-01 9.35E-01

2 rs17048446 114971579 C A 0.04 6.65E-01 6.65E-01 7.74E-01 7.74E-01 7.08E-01 7.08E-01 8.35E-01

2 DPP10 rs10496465 114974533 A G 0.16 4.68E-01 4.68E-01 5.79E-01 5.80E-01 6.83E-01 7.15E-01 3.05E-01

2 DPP10 rs1820924 114986677 C T 0.20 5.79E-01 5.79E-01 3.33E-02 3.33E-02 3.77E-01 3.77E-01 5.83E-01

2 DPP10 rs6750402 114988259 T C 0.26 2.56E-01 1.40E-01 4.19E-01 4.19E-01 2.38E-02 2.38E-02 6.04E-01

2 DPP10 rs10187644 114988311 C T 0.42 4.35E-01 3.91E-01 4.02E-01 4.02E-01 7.60E-02 7.60E-02 6.49E-01

2 DPP10 rs1346762 114989031 T G 0.33 5.69E-01 5.69E-01 9.11E-01 9.11E-01 1.17E-01 1.17E-01 7.19E-01

2 DPP10 rs1346763 114989183 C T 0.43 3.78E-01 3.78E-01 7.43E-01 7.43E-01 9.75E-01 9.75E-01 4.94E-01

2 DPP10 rs1430101 114995208 G A 0.81 7.24E-01 7.24E-01 5.60E-01 5.60E-01 5.95E-01 5.95E-01 6.20E-01

2 DPP10 rs2420165 114997094 G T 0.10 5.38E-02 1.31E-02 5.52E-01 5.52E-01 2.52E-02 2.52E-02 5.20E-01

2 DPP10 rs12995265 115000247 C A 0.17 5.84E-01 5.83E-01 7.76E-01 6.54E-01 8.72E-01 8.27E-01 8.23E-02

2 DPP10 rs6746254 115002163 C T 0.14 8.83E-01 8.83E-01 6.05E-02 6.05E-02 2.60E-01 2.60E-01 9.17E-01

2 DPP10 rs1430104 115002724 A G 0.34 6.23E-01 6.23E-01 8.23E-01 8.23E-01 1.25E-01 1.25E-01 6.84E-01

2 DPP10 rs11123246 115003762 G T 0.17 5.73E-01 6.06E-01 7.50E-01 6.74E-01 8.28E-01 7.47E-01 1.38E-01

2 DPP10 rs1430108 115009296 T C 0.47 5.22E-01 2.47E-01 5.93E-01 4.57E-01 3.60E-01 1.61E-01 3.94E-02

2 DPP10 rs6542214 115011131 T C 0.40 9.73E-01 5.23E-01 1.57E-01 1.16E-01 9.80E-01 6.52E-01 5.32E-03

2 DPP10 rs12987334 115012352 T C 0.08 2.02E-01 2.02E-01 2.08E-01 2.64E-02 8.34E-01 9.58E-01 1.46E-01

2 DPP10 rs7590021 115019520 T C 0.24 9.59E-01 7.53E-01 7.20E-01 7.20E-01 7.94E-01 8.55E-01 1.72E-01

2 DPP10 rs2082131 115026528 C T 0.21 1.42E-01 1.42E-01 5.77E-01 5.77E-01 8.41E-01 8.41E-01 9.12E-01

2 DPP10 rs10514812 115038151 G A 0.11 3.23E-01 3.23E-01 2.05E-01 2.05E-01 1.12E-01 1.12E-01 8.05E-01

2 DPP10 rs6746835 115042745 G A 0.21 2.12E-01 2.12E-01 5.80E-01 5.80E-01 7.40E-01 7.40E-01 9.21E-01

2 DPP10 rs10496466 115053720 G A 0.19 2.86E-01 2.86E-01 7.76E-01 7.76E-01 8.37E-01 8.37E-01 8.99E-01

2 DPP10 rs6729737 115058303 G T 0.61 1.34E-01 1.34E-01 6.62E-01 8.63E-01 5.58E-01 5.46E-01 3.45E-01

2 DPP10 rs996135 115061986 G A 0.28 1.18E-01 1.18E-01 8.13E-01 8.31E-01 3.39E-01 3.39E-01 5.99E-01

2 rs12999482 115066439 G A 0.10 7.29E-01 7.29E-01 9.77E-01 5.79E-01 8.85E-01 8.61E-01 4.29E-01

2 DPP10 rs17048497 115069198 C A 0.10 9.05E-01 9.15E-01 3.61E-02 3.61E-02 2.01E-01 2.01E-01 5.95E-01

2 DPP10 rs1965088 115069506 T G 0.19 7.78E-01 9.15E-01 3.52E-01 6.39E-02 3.94E-01 4.94E-01 5.68E-02

2 DPP10 rs7582739 115071862 T C 0.09 9.63E-01 9.63E-01 3.58E-02 3.58E-02 1.89E-01 1.89E-01 7.09E-01

2 DPP10 rs17715426 115072177 G A 0.10 8.50E-01 8.50E-01 9.60E-01 5.50E-01 8.52E-01 7.39E-01 2.98E-01

2 DPP10 rs17782840 115077281 C A 0.11 2.41E-01 1.63E-01 4.44E-01 4.44E-01 1.36E-01 1.36E-01 7.70E-01

2 rs785041 115087105 A G 0.07 2.81E-01 1.28E-01 1.43E-01 1.40E-01 5.83E-01 7.92E-01 1.76E-01

2 DPP10 rs17715867 115096853 A C 0.07 4.70E-01 4.70E-01 2.97E-01 2.97E-01 6.80E-01 6.80E-01 9.87E-01

2 DPP10 rs2010543 115100165 A G 0.07 1.32E-01 5.27E-02 4.00E-01 4.00E-01 4.56E-01 2.63E-01 2.62E-01

2 DPP10 rs6542217 115100863 G A 0.30 5.38E-01 4.99E-01 1.29E-01 1.29E-01 3.76E-01 3.76E-01 6.13E-01

2 DPP10 rs17048536 115102925 G A 0.07 2.18E-01 1.48E-01 1.39E-01 1.39E-01 6.54E-01 7.54E-01 3.22E-01

2 DPP10 rs12711800 115104756 T C 0.20 8.06E-02 8.06E-02 1.62E-01 1.62E-01 7.75E-01 7.75E-01 6.95E-01

2 DPP10 rs7557857 115107076 G A 0.12 6.07E-01 6.07E-01 9.96E-01 9.96E-01 8.09E-01 8.09E-01 9.24E-01

2 DPP10 rs10496469 115108946 G A 0.07 3.52E-01 2.51E-01 1.56E-01 1.56E-01 6.24E-01 6.62E-01 4.17E-01

2 DPP10 rs12996109 115110997 C T 0.13 3.72E-01 3.72E-01 7.66E-01 7.66E-01 9.26E-01 9.26E-01 9.14E-01

2 rs6542218 115113528 G T 0.04 5.38E-01 5.38E-01 5.98E-01 5.46E-01 2.48E-01 2.36E-01 7.14E-02

2 DPP10 rs7575903 115120262 C T 0.11 1.86E-01 1.86E-01 6.53E-01 6.53E-01 8.24E-01 8.24E-01 7.21E-01

2 DPP10 rs10496470 115122996 G A 0.09 9.01E-01 9.95E-01 8.50E-01 8.92E-01 9.83E-01 8.96E-01 3.35E-01

2 DPP10 rs9308697 115124129 T C 0.20 1.38E-01 1.37E-01 2.57E-01 2.57E-01 1.23E-01 1.23E-01 7.28E-01

2 DPP10 rs17783638 115124647 T C 0.07 1.03E-01 7.73E-02 4.13E-01 4.13E-01 1.39E-01 1.41E-01 4.04E-01

2 DPP10 rs13022574 115127434 C A 0.07 2.03E-01 1.68E-01 4.29E-02 4.29E-02 2.06E-01 2.10E-01 3.44E-01

2 DPP10 rs1561070 115135149 G T 0.10 5.99E-01 7.16E-01 1.50E-01 1.41E-01 2.28E-01 2.26E-01 3.66E-01

2 DPP10 rs10175018 115139525 A G 0.17 2.98E-01 2.57E-01 3.03E-01 3.03E-01 3.57E-01 3.57E-01 5.62E-01

2 DPP10 rs718062 115149118 G A 0.31 8.18E-01 7.68E-01 9.25E-01 9.25E-01 2.86E-01 1.77E-01 1.89E-01

2 DPP10 rs7589409 115150229 A G 0.41 6.92E-01 6.92E-01 7.56E-01 8.78E-01 2.03E-01 1.05E-01 1.54E-01

2 DPP10 rs12478101 115151148 G A 0.04 8.50E-01 8.50E-01 1.93E-01 1.93E-01 2.49E-01 2.49E-01 5.28E-01

2 DPP10 rs13430153 115159545 T C 0.11 4.79E-01 4.79E-01 4.34E-01 4.09E-01 9.41E-01 9.41E-01 9.57E-01

2 rs13032740 115169655 C T 0.09 4.57E-01 4.57E-01 3.26E-01 2.95E-01 8.41E-01 8.41E-01 7.71E-01

Supplementary Table 3

Results of asthma meta-analysis for previously reported genes in subjects of European ancestry from genome-wide association studies and positional

cloning studies of asthma

Gene Marker Position P_random P_fixed P_random P_fixed P_random P_fixed

Chromosome

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset +

severe + industrial

asthma)

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

2 DPP10 rs17043361 115175418 G A 0.06 1.17E-01 5.46E-02 2.82E-01 2.74E-01 1.25E-01 1.17E-01 9.78E-02

2 DPP10 rs17043364 115175949 A G 0.04 6.93E-01 6.93E-01 4.95E-01 4.95E-01 7.24E-01

2 DPP10 rs930314 115176545 T G 0.03 7.48E-01 7.48E-01 3.85E-01 3.85E-01 8.80E-01

2 DPP10 rs10190695 115179533 A G 0.46 8.01E-01 6.18E-01 7.78E-01 7.78E-01 6.81E-01 3.71E-01 3.05E-02

2 DPP10 rs7605779 115189074 T G 0.10 4.69E-01 4.69E-01 2.34E-01 2.34E-01 8.16E-01 8.16E-01 9.08E-01

2 DPP10 rs1435878 115189192 C T 0.36 7.53E-01 5.24E-01 8.82E-01 7.65E-01 5.51E-01 2.75E-01 1.35E-02

2 DPP10 rs17784852 115190809 A C 0.07 6.66E-01 5.77E-01 9.72E-01 9.72E-01 2.98E-01 2.67E-01 3.72E-01

2 DPP10 rs13030450 115197155 A G 0.06 4.81E-01 4.81E-01 8.73E-01 8.73E-01 9.49E-01 9.49E-01 8.37E-01

2 DPP10 rs17728568 115203927 A G 0.04 8.55E-01 8.55E-01 9.13E-01 8.56E-01 7.97E-01 7.97E-01 4.50E-01

2 DPP10 rs7606549 115206668 G A 0.46 9.73E-01 8.79E-01 7.10E-01 7.10E-01 5.74E-01 3.63E-01 7.40E-02

2 DPP10 rs1435879 115209357 A G 0.12 1.68E-01 1.42E-01 1.14E-01 1.14E-01 2.29E-01 2.15E-01 2.45E-01

2 DPP10 rs7574829 115211612 A G 0.08 4.21E-01 4.21E-01 5.71E-01 5.94E-01 7.50E-01 7.50E-01 8.30E-01

2 DPP10 rs2117851 115216793 T C 0.75 3.63E-01 3.63E-01 9.34E-01 9.34E-01 2.35E-01 2.35E-01 7.35E-01

2 DPP10 rs2082875 115228186 G A 0.35 8.48E-01 4.17E-01 7.15E-01 7.15E-01 7.26E-01 6.95E-01 1.21E-02

2 DPP10 rs10211528 115231020 A G 0.07 6.62E-01 6.62E-01 4.74E-01 4.74E-01 8.50E-01 8.50E-01 9.03E-01

2 rs1435868 115236675 C T 0.47 5.60E-01 3.36E-01 6.74E-01 5.36E-01 6.27E-01 4.51E-01 2.50E-02

2 DPP10 rs17786019 115238187 T C 0.04 3.53E-01 3.53E-01 8.32E-01 9.27E-01 5.13E-01 5.13E-01 4.17E-01

2 DPP10 rs319853 115243378 G A 0.52 8.27E-01 5.29E-01 8.50E-01 8.52E-01 7.68E-01 6.64E-01 3.65E-02

2 DPP10 rs319854 115243783 G A 0.52 8.89E-01 5.87E-01 9.14E-01 9.26E-01 7.02E-01 5.89E-01 3.11E-02

2 DPP10 rs17786162 115245828 T C 0.05 7.55E-01 7.55E-01 3.88E-01 3.88E-01 5.75E-01 5.75E-01 9.92E-01

2 DPP10 rs368872 115249236 G T 0.53 9.81E-01 7.43E-01 7.65E-01 7.65E-01 7.02E-01 5.88E-01 9.42E-02

2 DPP10 rs319842 115251611 G A 0.46 2.21E-01 1.47E-01 9.54E-01 7.92E-01 9.54E-01 8.94E-01 9.38E-02

2 DPP10 rs6754133 115253261 T C 0.06 5.54E-01 5.54E-01 3.41E-01 3.41E-01 2.08E-01 2.08E-01 9.97E-01

2 DPP10 rs319851 115259488 T C 0.40 7.83E-01 4.25E-01 2.37E-01 2.37E-01 2.98E-01 1.26E-01 4.95E-03

2 DPP10 rs6726425 115270860 T C 0.56 9.04E-01 8.16E-01 7.77E-01 7.77E-01 4.34E-01 3.21E-01 8.22E-02

2 DPP10 rs1519668 115271417 C T 0.62 9.28E-01 6.13E-01 6.53E-01 5.01E-01 3.76E-01 2.15E-01 1.75E-02

2 DPP10 rs12472049 115273644 T C 0.06 9.27E-01 9.27E-01 1.24E-01 1.24E-01 2.61E-01 2.61E-01 9.96E-01

2 DPP10 rs10496475 115274507 G A 0.16 2.81E-01 2.81E-01 2.66E-01 8.46E-02 3.41E-02 1.82E-02 2.83E-01

2 DPP10 rs1519672 115274742 A G 0.56 8.30E-01 8.98E-01 8.13E-01 8.13E-01 3.66E-01 2.68E-01 8.63E-02

2 DPP10 rs2420449 115289520 A G 0.61 9.63E-01 7.61E-01 5.30E-01 2.76E-01 2.01E-01 1.26E-01 1.81E-02

2 DPP10 rs908931 115289969 C T 0.48 8.04E-01 5.29E-01 5.82E-01 5.82E-01 8.41E-01 7.75E-01 6.89E-02

2 DPP10 rs1519673 115292894 C T 0.54 6.05E-01 2.72E-01 4.34E-01 4.34E-01 9.44E-01 9.41E-01 7.88E-03

2 DPP10 rs1519674 115293674 A C 0.24 7.79E-01 7.79E-01 2.38E-01 2.38E-01 8.42E-01 8.56E-01 2.58E-01

2 DPP10 rs1474170 115299678 T C 0.83 3.27E-01 2.74E-01 9.30E-01 9.83E-01 3.30E-01 3.49E-01 1.17E-01

2 DPP10 rs6732028 115303409 A G 0.46 2.23E-01 1.86E-01 7.58E-01 7.58E-01 4.22E-01 4.22E-01 5.92E-01

2 DPP10 rs2139411 115306076 A G 0.78 6.80E-01 6.60E-01 5.76E-01 7.45E-01 8.17E-01 6.31E-01 6.64E-02

2 DPP10 rs7558870 115307828 G A 0.62 8.71E-01 7.56E-01 9.25E-01 9.58E-01 8.42E-01 9.70E-01 1.81E-01

2 DPP10 rs10496476 115315483 G T 0.26 4.46E-01 4.20E-01 2.39E-01 2.62E-01 7.86E-01 8.79E-01 2.03E-01

2 DPP10 rs6755195 115321532 G T 0.11 4.64E-01 4.50E-01 8.78E-02 5.75E-02 8.18E-01 7.78E-01 1.22E-01

2 DPP10 rs6745105 115321735 A G 0.11 5.18E-01 5.11E-01 1.16E-01 7.70E-02 8.53E-01 8.22E-01 1.36E-01

2 DPP10 rs1519667 115329377 T C 0.45 7.33E-01 7.33E-01 8.81E-01 9.16E-01 7.07E-01 7.07E-01 6.54E-01

2 DPP10 rs1879124 115330047 A G 0.29 7.02E-01 7.02E-01 8.00E-01 8.70E-01 9.46E-01 9.46E-01 5.23E-01

2 DPP10 rs13020576 115333024 G A 0.27 7.65E-01 4.75E-01 4.79E-01 7.14E-01 7.40E-01 7.75E-01 2.46E-02

2 DPP10 rs11684641 115335409 G A 0.21 5.07E-01 3.85E-01 1.66E-01 1.66E-01 6.03E-01 6.00E-01 3.82E-01

2 DPP10 rs13007523 115338669 G A 0.45 7.05E-01 7.33E-01 3.85E-01 4.33E-01 7.24E-01 6.53E-01 1.74E-01

2 DPP10 rs6542227 115342499 T C 0.28 5.29E-01 2.94E-01 5.54E-01 9.38E-01 6.36E-01 6.48E-01 2.74E-02

2 DPP10 rs13000828 115354760 G A 0.45 8.25E-01 8.63E-01 3.37E-01 3.18E-01 8.93E-01 8.51E-01 1.24E-01

2 DPP10 rs998429 115364053 T G 0.25 5.75E-01 4.95E-01 3.96E-01 3.96E-01 8.36E-01 8.36E-01 5.26E-01

2 DPP10 rs4144326 115366270 A G 0.29 8.98E-01 9.42E-01 6.47E-01 9.31E-01 9.13E-01 7.74E-01 1.82E-02

2 DPP10 rs12473320 115366775 G A 0.50 5.35E-01 5.35E-01 1.90E-01 1.59E-01 7.46E-01 7.74E-01 2.90E-01

2 DPP10 rs13032069 115382418 C A 0.22 3.80E-01 1.81E-01 9.70E-01 7.31E-01 5.68E-01 5.04E-01 8.52E-02

2 DPP10 rs7559740 115395781 C T 0.12 3.99E-01 3.99E-01 4.67E-01 3.87E-01 3.30E-01 3.30E-01 4.78E-01

2 rs4849358 115404426 C T 0.17 6.34E-01 5.03E-01 9.64E-01 4.84E-01 8.82E-01 9.56E-01 1.70E-02

2 DPP10 rs1914973 115405000 C T 0.14 6.78E-01 6.78E-01 7.68E-01 4.45E-01 5.68E-01 5.68E-01 4.94E-01

2 DPP10 rs11693826 115406713 G A 0.24 3.46E-01 3.46E-01 6.81E-01 7.57E-01 2.53E-01 2.53E-01 4.96E-01

2 DPP10 rs10496481 115414243 G T 0.24 3.73E-01 3.73E-01 7.26E-01 8.25E-01 3.06E-01 2.65E-01 3.99E-01

2 DPP10 rs6736340 115420181 A C 0.44 8.46E-01 8.46E-01 9.51E-01 8.33E-01 6.61E-01 6.61E-01 5.36E-01

2 DPP10 rs980316 115427296 T C 0.35 3.12E-01 3.12E-01 9.39E-01 8.50E-01 4.86E-01 4.86E-01 6.66E-01

2 DPP10 rs980317 115427406 T C 0.28 3.87E-01 3.87E-01 5.37E-01 7.09E-01 3.78E-01 3.78E-01 5.70E-01

2 DPP10 rs7421482 115432855 G T 0.25 3.21E-01 3.21E-01 7.64E-01 9.73E-01 7.02E-01 7.10E-01 4.25E-01

2 DPP10 rs2175176 115437366 G T 0.46 5.87E-01 4.20E-01 9.81E-01 3.62E-01 8.54E-01 9.58E-01 4.47E-02

2 DPP10 rs2420589 115438479 A G 0.35 6.75E-01 6.75E-01 9.92E-01 5.00E-01 4.94E-01 4.94E-01 7.12E-01

Supplementary Table 3

Results of asthma meta-analysis for previously reported genes in subjects of European ancestry from genome-wide association studies and positional

cloning studies of asthma

Gene Marker Position P_random P_fixed P_random P_fixed P_random P_fixed

Chromosome

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset +

severe + industrial

asthma)

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

2 DPP10 rs12469474 115439504 G A 0.25 2.73E-01 2.73E-01 7.64E-01 9.61E-01 6.67E-01 6.96E-01 2.82E-01

2 DPP10 rs1509739 115451991 T C 0.21 8.88E-01 8.88E-01 6.20E-01 3.19E-01 7.53E-01 7.53E-01 5.21E-01

2 DPP10 rs2036779 115452225 G A 0.16 8.67E-01 8.67E-01 3.14E-01 3.11E-01 6.57E-01 6.57E-01 8.13E-01

2 DPP10 rs1396932 115458218 A C 0.55 5.16E-01 5.16E-01 7.83E-01 2.18E-01 7.84E-01 7.87E-01 3.76E-01

2 DPP10 rs949577 115460017 A G 0.22 5.17E-01 5.17E-01 6.81E-01 9.09E-01 7.79E-01 8.12E-01 3.14E-01

2 DPP10 rs7603116 115460040 A G 0.14 5.17E-01 3.23E-01 1.48E-01 1.48E-01 7.04E-01 6.75E-01 8.93E-02

2 DPP10 rs1396934 115460391 G A 0.19 8.69E-01 8.69E-01 7.86E-01 2.78E-01 5.53E-01 4.40E-01 1.28E-01

2 DPP10 rs17452458 115461787 A G 0.25 9.01E-01 8.63E-01 8.05E-01 5.09E-01 9.48E-01 9.94E-01 3.89E-01

2 DPP10 rs1980007 115472927 A G 0.77 9.08E-01 9.08E-01 4.89E-01 4.42E-01 8.81E-01 8.81E-01 7.81E-01

2 DPP10 rs17043899 115474179 G T 0.23 8.66E-01 8.66E-01 7.02E-01 7.02E-01 8.65E-01 8.65E-01 7.75E-01

2 DPP10 rs1355224 115505063 T G 0.39 5.38E-01 5.43E-01 8.86E-01 9.64E-01 3.20E-01 3.20E-01 5.37E-01

2 DPP10 rs17043916 115508890 C T 0.12 3.77E-02 3.77E-02 1.69E-01 1.69E-01 2.56E-03 2.56E-03 7.86E-01

2 DPP10 rs1396936 115510596 G T 0.07 5.51E-01 5.97E-01 1.25E-01 5.65E-02 3.99E-02 2.65E-02 1.52E-01

2 DPP10 rs12328529 115512842 A G 0.04 6.78E-01 4.16E-01 2.52E-01 1.55E-01 2.87E-01 1.47E-01 1.68E-01

2 DPP10 rs11694256 115517079 G T 0.38 5.61E-01 5.91E-01 8.53E-01 9.07E-01 3.29E-01 2.71E-01 3.04E-01

2 DPP10 rs6709267 115529748 G A 0.39 5.77E-01 5.87E-01 8.34E-01 7.81E-01 4.23E-01 3.08E-01 2.19E-01

2 DPP10 rs17043949 115534219 A G 0.12 5.32E-02 5.32E-02 1.95E-01 1.95E-01 3.96E-03 3.96E-03 8.46E-01

2 DPP10 rs17452616 115539225 T C 0.54 6.76E-01 7.02E-01 4.79E-01 4.52E-01 2.53E-01 2.53E-01 4.51E-01

2 DPP10 rs7593500 115543782 G A 0.83 9.07E-01 9.07E-01 2.08E-01 1.28E-01 2.28E-01 3.21E-01 6.91E-02

2 DPP10 rs1396919 115544258 A G 0.16 8.63E-01 8.63E-01 1.90E-01 1.44E-01 2.21E-01 2.90E-01 1.56E-01

2 DPP10 rs10864934 115549044 G A 0.19 1.44E-01 1.44E-01 3.23E-02 3.23E-02 3.95E-03 3.95E-03 7.91E-01

2 DPP10 rs17043985 115551123 T C 0.12 8.77E-02 8.77E-02 2.14E-01 2.14E-01 3.51E-02 3.51E-02 9.31E-01

2 DPP10 rs13424206 115551194 G A 0.16 9.07E-01 8.95E-01 1.88E-01 1.74E-01 2.22E-01 2.81E-01 1.42E-01

2 DPP10 rs11695180 115565251 C T 0.54 8.26E-01 6.24E-01 9.64E-01 6.90E-01 9.85E-01 8.79E-01 6.31E-02

2 DPP10 rs12994269 115566962 G A 0.13 6.39E-01 6.39E-01 9.07E-01 8.57E-01 5.96E-01 5.96E-01 7.25E-01

2 DPP10 rs958396 115567187 A G 0.88 1.12E-01 1.12E-01 2.09E-01 2.09E-01 4.11E-02 4.11E-02 9.15E-01

2 DPP10 rs11123279 115577747 C T 0.12 7.10E-02 7.10E-02 2.12E-01 2.12E-01 2.79E-02 2.79E-02 9.14E-01

2 DPP10 rs13035561 115578492 G T 0.42 8.51E-01 6.85E-01 6.54E-01 6.54E-01 7.39E-01 7.39E-01 4.67E-01

2 DPP10 rs4277531 115589266 C T 0.41 6.23E-01 6.23E-01 3.74E-01 3.74E-01 2.45E-01 2.45E-01 8.51E-01

2 DPP10 rs10496487 115589903 G A 0.28 7.33E-01 5.85E-01 9.15E-01 9.15E-01 8.34E-01 8.34E-01 6.64E-01

2 DPP10 rs12464801 115590209 G A 0.29 8.32E-01 6.40E-01 9.92E-01 9.92E-01 8.90E-01 8.90E-01 5.87E-01

2 DPP10 rs4459743 115591012 T C 0.42 8.99E-01 7.56E-01 6.59E-01 6.65E-01 7.30E-01 7.32E-01 4.48E-01

2 DPP10 rs7579207 115598322 A G 0.68 7.48E-01 7.48E-01 8.10E-01 5.00E-01 2.65E-01 2.65E-01 5.35E-01

2 rs4491738 115606574 T C 0.07 6.77E-01 6.77E-01 8.52E-02 8.52E-02 1.94E-01 1.94E-01 9.84E-01

2 DPP10 rs983829 115610426 G A 0.08 4.78E-01 4.78E-01 2.19E-01 2.19E-01 2.16E-01 2.16E-01 9.98E-01

2 rs958457 115614204 G A 0.74 5.98E-02 5.98E-02 8.59E-01 8.95E-01 4.74E-02 4.55E-02 4.53E-01

2 DPP10 rs13416481 115617355 A G 0.12 6.29E-01 6.29E-01 6.49E-01 6.49E-01 4.68E-01 5.70E-01 2.24E-01

2 DPP10 rs4131302 115633940 G A 0.66 1.40E-01 1.40E-01 3.66E-01 3.05E-01 2.41E-02 2.41E-02 7.90E-01

2 DPP10 rs10445863 115645711 C T 0.57 1.71E-01 1.71E-01 2.67E-02 1.90E-02 1.46E-03 1.46E-03 7.84E-01

2 DPP10 rs10195710 115649104 G A 0.48 2.26E-02 1.45E-02 1.85E-01 1.34E-01 2.50E-03 1.13E-03 3.62E-01

2 DPP10 rs2176250 115659110 G T 0.82 1.36E-01 1.29E-01 7.60E-01 7.60E-01 9.17E-02 9.17E-02 7.49E-01

2 DPP10 rs11693764 115660403 T C 0.58 5.19E-01 5.19E-01 2.23E-01 2.23E-01 9.26E-03 7.74E-03 4.18E-01

2 DPP10 rs7558702 115662793 A G 0.81 9.17E-01 9.17E-01 3.52E-01 3.52E-01 1.76E-01 1.76E-01 6.47E-01

2 DPP10 rs17044170 115672208 A G 0.16 5.05E-01 5.17E-01 8.01E-01 8.23E-01 6.45E-01 5.35E-01 1.62E-01

2 rs7581057 115674549 A G 0.07 1.63E-02 1.63E-02 9.05E-01 7.86E-01 1.91E-02 1.91E-02 6.24E-01

2 DPP10 rs7593121 115674589 G A 0.64 9.59E-01 9.59E-01 3.73E-01 3.73E-01 3.10E-01 3.10E-01 6.59E-01

2 rs17355616 115674975 T C 0.08 7.15E-01 7.15E-01 7.81E-01 7.81E-01 7.36E-01 7.36E-01 8.88E-01

2 DPP10 rs9308710 115678272 C T 0.07 5.63E-01 4.54E-01 9.05E-01 8.06E-01 5.94E-01 5.49E-01 1.42E-02

2 DPP10 rs11123288 115680476 G A 0.24 6.66E-01 7.29E-01 7.41E-01 5.71E-01 2.09E-01 1.96E-01 3.91E-01

2 DPP10 rs10496483 115680980 C T 0.90 6.04E-01 6.04E-01 6.75E-01 6.75E-01 9.30E-01 9.30E-01 8.43E-01

2 DPP10 rs4849387 115686350 G A 0.90 6.69E-01 6.69E-01 6.34E-01 6.34E-01 9.87E-01 9.87E-01 8.59E-01

2 DPP10 rs10204084 115690303 A G 0.58 8.75E-01 8.40E-01 4.21E-01 4.21E-01 2.05E-01 1.91E-01 4.17E-01

2 DPP10 rs12327976 115693111 A G 0.07 2.83E-02 2.83E-02 7.76E-01 6.75E-01 3.30E-02 3.30E-02 7.50E-01

2 DPP10 rs7567991 115699889 T C 0.50 5.25E-01 5.31E-01 4.00E-01 4.00E-01 5.37E-02 5.37E-02 5.45E-01

2 DPP10 rs6542254 115703204 T G 0.16 7.53E-01 7.86E-01 8.67E-01 9.10E-01 7.50E-01 6.70E-01 2.19E-01

2 DPP10 rs10206444 115707117 G A 0.95 6.45E-02 6.45E-02 6.50E-01 6.50E-01 1.05E-01 1.05E-01 7.98E-01

2 DPP10 rs13001269 115710044 A G 0.09 8.19E-01 8.19E-01 3.35E-01 3.35E-01 3.63E-01 3.63E-01 4.96E-01

2 DPP10 rs4849389 115719648 G A 0.10 7.08E-01 7.08E-01 6.90E-01 6.90E-01 4.42E-01 4.42E-01 8.98E-01

2 DPP10 rs12991665 115730547 G A 0.04 1.01E-01 1.01E-01 8.76E-02 8.76E-02 4.36E-01 4.64E-01 2.85E-01

2 DPP10 rs7577833 115735293 G T 0.54 6.13E-01 6.13E-01 7.84E-01 7.84E-01 2.94E-01 2.94E-01 7.50E-01

2 DPP10 rs4276031 115737034 A G 0.83 3.68E-01 3.68E-01 9.82E-01 9.82E-01 3.38E-01 3.38E-01 7.22E-01

2 DPP10 rs13386690 115739580 A G 0.29 9.42E-01 9.01E-01 6.30E-01 6.30E-01 6.21E-01 6.21E-01 5.21E-01

Supplementary Table 3

Results of asthma meta-analysis for previously reported genes in subjects of European ancestry from genome-wide association studies and positional

cloning studies of asthma

Gene Marker Position P_random P_fixed P_random P_fixed P_random P_fixed

Chromosome

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset +

severe + industrial

asthma)

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

2 DPP10 rs4849390 115746236 T G 0.79 6.45E-01 6.27E-01 7.19E-01 8.24E-01 6.25E-01 6.25E-01 5.16E-01

2 DPP10 rs12619497 115748987 G A 0.04 1.01E-01 1.01E-01 8.90E-02 8.90E-02 4.31E-01 4.58E-01 2.84E-01

2 DPP10 rs11690705 115754040 A G 0.79 5.95E-01 5.80E-01 7.20E-01 8.29E-01 5.71E-01 5.71E-01 5.27E-01

2 DPP10 rs6706690 115763634 A G 0.08 2.88E-01 2.88E-01 8.15E-01 8.15E-01 6.82E-01 6.82E-01 8.35E-01

2 rs7569580 115766447 A G 0.25 9.00E-01 9.92E-01 9.36E-01 9.36E-01 4.54E-01 4.15E-01 3.52E-01

2 DPP10 rs12988978 115771844 C T 0.04 1.03E-01 1.03E-01 7.85E-02 7.85E-02 4.52E-01 4.83E-01 2.69E-01

2 DPP10 rs7591002 115773770 G A 0.75 9.07E-01 9.07E-01 9.13E-01 9.13E-01 5.12E-01 5.12E-01 9.26E-01

2 DPP10 rs6542256 115787835 C T 0.90 7.81E-01 7.81E-01 9.50E-01 9.50E-01 7.49E-01 7.49E-01 9.37E-01

2 DPP10 rs2420815 115794912 C T 0.74 9.49E-01 9.49E-01 9.71E-01 9.71E-01 5.07E-01 5.07E-01 9.48E-01

2 DPP10 rs11885726 115803408 C T 0.53 6.81E-01 6.81E-01 8.08E-01 8.08E-01 2.93E-01 2.93E-01 8.89E-01

2 DPP10 rs7569681 115810916 T C 0.09 4.46E-01 4.46E-01 6.33E-01 6.33E-01 6.09E-01 6.09E-01 8.55E-01

2 DPP10 rs12999921 115813957 G T 0.05 3.11E-01 3.11E-01 9.57E-01 9.69E-01 1.26E-01 1.26E-01 6.76E-01

2 DPP10 rs11123298 115815135 T C 0.77 8.23E-01 7.67E-01 7.56E-01 7.56E-01 6.85E-01 6.85E-01 5.52E-01

2 DPP10 rs2420819 115825388 T C 0.70 9.70E-01 9.70E-01 8.71E-01 8.71E-01 4.76E-01 4.76E-01 8.26E-01

2 DPP10 rs10180987 115839902 G A 0.75 8.09E-01 8.09E-01 9.20E-01 9.24E-01 5.46E-01 5.46E-01 8.99E-01

2 DPP10 rs2421100 115847179 C A 0.72 8.77E-01 8.77E-01 9.65E-01 9.73E-01 5.13E-01 5.13E-01 7.95E-01

2 DPP10 rs4849396 115863152 A G 0.85 4.49E-01 2.58E-01 9.89E-01 8.54E-01 4.54E-01 3.22E-01 2.12E-01

2 DPP10 rs870925 115863507 A G 0.55 4.44E-01 4.44E-01 8.46E-01 8.46E-01 2.42E-01 2.42E-01 8.32E-01

2 DPP10 rs9308712 115864578 A G 0.18 6.00E-01 6.35E-01 4.93E-01 4.16E-01 7.50E-01 7.49E-01 4.58E-01

2 DPP10 rs13022199 115870472 G A 0.11 4.11E-01 4.11E-01 6.68E-01 6.68E-01 9.51E-01 9.51E-01 8.18E-01

2 DPP10 rs2421101 115870894 C T 0.54 4.56E-01 4.56E-01 9.16E-01 9.16E-01 2.39E-01 2.39E-01 8.92E-01

2 rs1521071 115874415 G T 0.85 5.38E-01 3.52E-01 9.67E-01 9.91E-01 5.70E-01 4.73E-01 2.65E-01

2 DPP10 rs1155664 115875027 C A 0.85 4.99E-01 2.82E-01 9.84E-01 8.57E-01 5.16E-01 3.75E-01 2.03E-01

2 DPP10 rs17453235 115875120 T C 0.13 3.34E-01 3.34E-01 4.34E-01 4.34E-01 9.03E-01 9.03E-01 8.07E-01

2 DPP10 rs11683441 115879084 T C 0.62 7.61E-01 7.61E-01 8.79E-01 8.79E-01 6.32E-01 6.32E-01 8.31E-01

2 DPP10 rs843399 115901805 A G 0.70 4.91E-01 4.91E-01 7.43E-01 6.46E-01 3.66E-01 3.66E-01 8.14E-01

2 DPP10 rs843394 115904553 T G 0.09 1.41E-01 1.41E-01 8.52E-01 8.52E-01 5.89E-01 5.89E-01 7.21E-01

2 DPP10 rs952747 115905440 G A 0.70 5.05E-01 5.05E-01 7.55E-01 6.58E-01 3.93E-01 3.93E-01 8.15E-01

2 DPP10 rs1717054 115906019 C T 0.09 1.35E-01 1.35E-01 9.73E-01 9.73E-01 6.31E-01 6.31E-01 6.79E-01

2 DPP10 rs843408 115917828 T G 0.41 9.75E-01 9.75E-01 6.77E-01 6.98E-01 3.61E-01 3.61E-01 5.67E-01

2 DPP10 rs843427 115936156 G A 0.97 2.80E-01 2.80E-01 2.80E-01 2.80E-01 8.33E-01

2 DPP10 rs4530380 115955218 A G 0.97 5.44E-01 5.44E-01 5.44E-01 5.44E-01

2 DPP10 rs1037205 115955648 C A 0.66 7.15E-01 5.64E-01 7.24E-01 7.29E-01 7.40E-01 6.95E-01 2.05E-01

2 DPP10 rs4849399 115964191 G A 0.30 9.61E-01 8.76E-01 7.17E-01 7.17E-01 5.66E-01 5.66E-01 4.74E-01

2 DPP10 rs7606086 115966076 C T 0.03 5.44E-01 5.44E-01 5.44E-01 5.44E-01

2 DPP10 rs13402727 115971279 G A 0.03 4.56E-01 4.56E-01 4.56E-01 4.56E-01

2 DPP10 rs13033419 115972159 G A 0.21 4.64E-01 4.64E-01 8.33E-01 8.18E-01 3.97E-01 3.97E-01 7.36E-01

2 DPP10 rs1868327 115977215 A G 0.21 5.02E-01 5.02E-01 8.38E-01 8.38E-01 4.16E-01 4.16E-01 7.53E-01

2 DPP10 rs4241135 115977459 A G 0.21 4.67E-01 4.67E-01 8.23E-01 8.03E-01 4.01E-01 4.01E-01 7.10E-01

2 DPP10 rs13429901 115996269 C T 0.12 4.13E-02 4.13E-02 9.71E-01 9.71E-01 4.89E-01 5.21E-01 3.76E-01

2 DPP10 rs7584395 116006198 A G 0.68 5.15E-01 3.48E-01 8.29E-01 8.29E-01 8.68E-01 7.92E-01 1.38E-01

2 DPP10 rs4849408 116023578 G A 0.20 7.08E-01 7.08E-01 9.74E-01 9.69E-01 4.84E-01 4.84E-01 6.35E-01

2 DPP10 rs1006342 116025663 A G 0.12 4.97E-02 4.97E-02 9.96E-01 9.96E-01 5.72E-01 6.19E-01 3.55E-01

2 DPP10 rs12466846 116028631 C T 0.88 4.54E-02 4.51E-02 9.04E-01 9.04E-01 5.81E-01 6.29E-01 3.53E-01

2 DPP10 rs1545396 116037145 T G 0.92 1.34E-01 1.04E-01 8.71E-01 8.26E-01 2.76E-01 2.49E-01 2.98E-01

2 DPP10 rs1550985 116040187 G A 0.30 3.71E-01 3.71E-01 7.87E-01 7.66E-01 1.27E-01 1.27E-01 8.74E-01

2 rs6738130 116043845 C T 0.70 3.67E-01 3.67E-01 8.13E-01 7.86E-01 1.20E-01 1.20E-01 8.49E-01

2 DPP10 rs921211 116051271 C T 0.56 4.42E-01 3.92E-01 8.49E-01 8.49E-01 5.63E-01 4.81E-01 1.71E-01

2 DPP10 rs11123313 116053871 G A 0.56 4.07E-01 3.88E-01 7.58E-01 7.58E-01 5.31E-01 4.53E-01 1.98E-01

2 DPP10 rs17044751 116058951 G A 0.22 9.15E-01 9.71E-01 4.58E-01 4.58E-01 1.48E-01 1.48E-01 7.29E-01

2 DPP10 rs17044762 116075337 A G 0.05 1.16E-01 1.16E-01 9.33E-01 9.03E-01 3.76E-01 2.97E-01 2.25E-01

2 DPP10 rs7419743 116077396 A G 0.22 8.42E-01 8.22E-01 4.62E-01 4.62E-01 2.20E-01 2.20E-01 7.22E-01

2 DPP10 rs10205952 116079164 T G 0.22 8.70E-01 8.70E-01 4.32E-01 4.32E-01 2.12E-01 2.12E-01 7.34E-01

2 DPP10 rs10496499 116090407 A C 0.13 3.90E-02 3.88E-02 6.37E-01 6.37E-01 2.44E-01 2.57E-01 3.80E-01

2 DPP10 rs4516432 116098367 T C 0.23 8.49E-01 8.49E-01 5.25E-01 5.25E-01 2.21E-01 2.21E-01 7.61E-01

2 DPP10 rs13012337 116113250 A G 0.09 2.60E-01 2.60E-01 5.06E-01 5.06E-01 7.00E-01 7.00E-01 6.23E-01

2 DPP10 rs11681542 116132273 A G 0.80 4.30E-01 3.16E-01 1.52E-01 1.08E-01 2.64E-01 1.04E-01 6.50E-03

2 DPP10 rs7589670 116135534 T C 0.16 3.31E-01 4.94E-01 3.07E-01 3.07E-01 3.09E-01 3.98E-01 6.59E-02

2 DPP10 rs6734985 116138658 C T 0.73 2.64E-01 3.84E-01 3.05E-01 1.24E-01 2.81E-01 3.23E-01 8.79E-05

2 DPP10 rs4599118 116142763 G T 0.09 8.39E-01 8.39E-01 9.51E-01 9.35E-01 8.75E-01 8.35E-01 2.80E-01

2 DPP10 rs4075701 116146260 T C 0.79 6.86E-01 3.65E-01 6.44E-01 4.78E-01 5.33E-01 4.02E-01 4.15E-02

2 DPP10 rs10864943 116152844 C T 0.73 3.06E-01 4.18E-01 2.83E-01 1.08E-01 3.28E-01 3.59E-01 7.31E-05

Supplementary Table 3

Results of asthma meta-analysis for previously reported genes in subjects of European ancestry from genome-wide association studies and positional

cloning studies of asthma

Gene Marker Position P_random P_fixed P_random P_fixed P_random P_fixed

Chromosome

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset +

severe + industrial

asthma)

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

2 DPP10 rs7606203 116180840 A C 0.16 4.48E-01 5.83E-01 2.43E-01 2.24E-01 3.24E-01 3.84E-01 6.94E-02

2 DPP10 rs10173996 116183753 T G 0.91 8.05E-01 8.33E-01 9.89E-01 9.91E-01 8.66E-01 8.77E-01 3.24E-01

2 DPP10 rs10496501 116187341 T C 0.11 6.20E-01 6.42E-01 4.58E-01 4.19E-01 6.83E-01 8.06E-01 1.83E-02

2 DPP10 rs17044908 116193710 A G 0.31 2.68E-01 2.43E-01 4.45E-01 2.70E-01 3.50E-01 3.07E-01 4.35E-02

2 DPP10 rs17652792 116195320 A G 0.11 6.54E-01 6.79E-01 4.60E-01 4.45E-01 7.47E-01 8.91E-01 2.18E-02

2 DPP10 rs13019180 116198410 T C 0.29 2.11E-01 1.79E-01 2.34E-01 1.49E-01 2.19E-01 1.75E-01 5.16E-02

2 DPP10 rs12621324 116200510 G A 0.43 7.97E-01 7.73E-01 8.86E-01 8.16E-01 9.72E-01 9.94E-01 3.55E-01

2 DPP10 rs13024934 116204990 A G 0.16 3.37E-01 4.40E-01 2.61E-01 2.61E-01 3.19E-01 4.30E-01 5.55E-02

2 DPP10 rs1900282 116226136 A G 0.61 1.60E-01 1.60E-01 5.64E-01 5.22E-01 3.11E-01 2.57E-01 1.79E-01

2 DPP10 rs2901396 116234212 A G 0.52 2.10E-01 1.91E-01 7.62E-01 7.70E-01 2.98E-01 2.96E-01 4.59E-01

2 DPP10 rs10496504 116237879 A G 0.28 1.48E-01 1.04E-01 1.55E-01 1.09E-01 1.73E-01 1.36E-01 6.18E-02

2 rs7566591 116239066 C T 0.91 9.27E-01 9.40E-01 6.83E-01 6.83E-01 9.77E-01 9.72E-01 3.64E-01

2 rs12476345 116244301 A G 0.28 8.08E-02 4.81E-02 2.34E-01 1.01E-01 5.88E-02 2.51E-02 1.11E-01

2 DPP10 rs2034257 116249416 G T 0.27 1.48E-01 8.01E-02 1.96E-01 1.26E-01 1.87E-01 1.24E-01 3.91E-02

2 rs1374268 116264796 G A 0.52 3.09E-01 3.00E-01 5.83E-01 5.96E-01 1.56E-01 1.56E-01 6.33E-01

2 rs13005041 116267510 A C 0.09 9.44E-01 9.44E-01 6.15E-01 6.15E-01 9.68E-01 9.87E-01 4.24E-01

2 DPP10 rs7601876 116280504 A G 0.10 9.46E-01 9.59E-01 5.61E-01 5.61E-01 9.59E-01 9.59E-01 5.07E-01

2 DPP10 rs13416281 116281430 C T 0.41 3.74E-01 3.74E-01 4.43E-01 4.40E-01 5.42E-01 5.52E-01 4.10E-01

2 DPP10 rs6722852 116291583 T C 0.39 3.57E-01 3.57E-01 3.37E-01 3.16E-01 4.66E-01 5.14E-01 1.77E-01

2 rs13033021 116294303 A G 0.39 3.34E-01 3.34E-01 7.18E-01 4.86E-01 2.09E-01 2.09E-01 5.82E-01

2 rs17718031 116297537 C T 0.11 3.89E-01 2.34E-01 5.82E-01 3.86E-01 5.41E-01 3.35E-01 5.39E-02

2 DPP10 rs1446481 116303608 T G 0.52 4.29E-01 3.21E-01 6.29E-01 6.86E-01 6.08E-01 6.74E-01 1.26E-01

2 DPP10 rs2421343 116306893 G A 0.10 9.11E-01 9.28E-01 6.54E-01 6.54E-01 9.62E-01 9.62E-01 5.03E-01

2 rs13034936 116309406 T C 0.11 1.03E-01 1.03E-01 1.32E-01 1.32E-01 4.98E-02 4.98E-02 7.98E-01

2 DPP10 rs272055 116333246 G A 0.61 1.87E-01 1.18E-01 4.34E-01 4.34E-01 2.75E-01 2.76E-01 4.15E-01

2 DPP10 rs17045165 116344045 C A 0.12 6.17E-01 5.74E-01 6.50E-01 4.40E-01 7.48E-01 7.48E-01 2.21E-03

2 DPP10 rs17045173 116346160 G A 0.12 6.49E-01 6.11E-01 7.29E-01 4.95E-01 8.05E-01 8.03E-01 1.24E-03

2 DPP10 rs272014 116349459 G A 0.49 2.77E-01 2.65E-01 8.61E-01 8.61E-01 5.01E-01 5.01E-01 6.02E-01

2 DPP10 rs12992776 116350519 G A 0.10 9.20E-01 9.39E-01 4.96E-01 4.96E-01 9.15E-01 9.15E-01 5.11E-01

2 DPP10 rs272038 116352332 T C 0.72 1.05E-01 8.00E-02 2.82E-01 1.81E-01 2.18E-01 1.70E-01 2.11E-02

2 rs272034 116354973 G T 0.48 2.58E-01 2.51E-01 9.24E-01 9.24E-01 2.55E-01 2.55E-01 7.32E-01

2 DPP10 rs272021 116360658 G A 0.27 6.93E-01 6.93E-01 5.33E-01 5.21E-01 7.99E-01 7.99E-01 5.87E-01

2 DPP10 rs272020 116360931 C T 0.71 2.08E-01 2.15E-01 2.63E-01 2.63E-01 2.95E-01 2.42E-01 4.48E-02

2 rs272017 116362645 C T 0.61 1.73E-01 9.62E-02 5.23E-01 5.23E-01 2.57E-01 2.58E-01 2.29E-01

2 rs272001 116370649 G A 0.71 4.97E-02 3.10E-02 2.82E-01 2.25E-01 9.03E-02 3.82E-02 2.79E-02

2 DPP10 rs13019645 116374306 T C 0.11 9.20E-01 7.82E-01 4.32E-01 4.32E-01 9.26E-01 9.06E-01 3.63E-01

2 DPP10 rs6707030 116377189 T C 0.11 7.89E-01 7.78E-01 4.07E-01 4.07E-01 9.42E-01 9.42E-01 4.82E-01

2 DPP10 rs10496511 116378186 T C 0.11 9.60E-01 7.34E-01 4.26E-01 4.26E-01 9.10E-01 8.81E-01 3.67E-01

2 DPP10 rs775335 116378779 T C 0.68 4.95E-02 4.00E-02 2.28E-01 2.28E-01 1.65E-01 1.09E-01 3.16E-01

2 rs708663 116379089 C T 0.55 1.34E-02 1.34E-02 2.79E-01 2.54E-01 1.85E-02 1.85E-02 5.40E-01

2 DPP10 rs11890985 116384532 G A 0.51 1.25E-01 1.25E-01 9.23E-01 9.23E-01 4.73E-01 4.73E-01 8.99E-01

2 DPP10 rs7581538 116385826 G A 0.51 1.25E-01 1.25E-01 9.10E-01 9.10E-01 2.64E-01 2.64E-01 9.33E-01

2 rs12711838 116395479 T C 0.45 1.80E-01 1.80E-01 9.10E-01 9.10E-01 2.51E-01 2.51E-01 9.97E-01

2 rs12711839 116399907 T C 0.44 5.62E-01 5.62E-01 4.33E-01 4.33E-01 6.08E-01 6.08E-01 9.39E-01

2 rs12711842 116404456 T C 0.93 7.13E-01 7.17E-01 8.03E-01 8.03E-01 9.91E-01 8.99E-01 2.82E-01

2 DPP10 rs1447241 116412904 C T 0.39 7.19E-02 7.19E-02 6.21E-01 5.85E-01 1.44E-01 1.44E-01 7.82E-01

2 DPP10 rs13384163 116426740 C T 0.02 9.80E-01 9.80E-01 9.80E-01 9.80E-01

2 DPP10 rs1374597 116449807 G T 0.07 6.57E-01 6.57E-01 5.59E-01 4.56E-01 4.78E-01 4.78E-01 4.98E-01

2 DPP10 rs12471912 116457119 G T 0.12 8.42E-01 7.74E-01 8.34E-01 7.96E-01 7.13E-01 6.54E-01 3.24E-01

2 DPP10 rs13401508 116458448 A G 0.02 7.75E-01 7.75E-01 7.75E-01 7.75E-01

2 rs2084307 116478012 G A 0.35 2.43E-01 2.43E-01 7.79E-01 7.78E-01 3.36E-01 3.36E-01 9.61E-01

2 DPP10 rs17045362 116485481 A G 0.05 8.91E-01 8.91E-01 5.56E-01 3.46E-01 5.07E-01 5.07E-01 5.84E-01

2 DPP10 rs11686430 116493024 G A 0.24 1.29E-01 5.59E-02 8.37E-01 8.55E-01 3.53E-01 2.17E-01 2.46E-02

2 DPP10 rs11686484 116493112 G A 0.18 6.95E-02 5.50E-02 9.88E-01 7.20E-01 1.98E-01 1.50E-01 2.19E-01

2 rs2014294 116495933 T C 0.24 1.64E-01 7.32E-02 9.54E-01 7.08E-01 3.07E-01 1.37E-01 2.18E-02

2 DPP10 rs1480497 116500956 A G 0.31 1.20E-01 6.92E-02 5.25E-01 1.88E-01 1.50E-01 8.66E-02 4.13E-02

2 DPP10 rs10200532 116504669 A G 0.19 3.82E-02 3.82E-02 8.90E-01 8.30E-01 2.33E-01 1.86E-01 2.05E-01

2 rs10170713 116509354 C T 0.18 8.42E-02 5.51E-02 8.65E-01 9.10E-01 2.28E-01 1.33E-01 1.19E-01

2 DPP10 rs1842420 116514592 G A 0.25 1.21E-01 4.85E-02 9.27E-01 6.86E-01 3.19E-01 1.97E-01 1.68E-02

2 DPP10 rs6715118 116517373 G A 0.24 9.56E-02 3.35E-02 8.94E-01 6.62E-01 2.96E-01 1.42E-01 1.15E-02

2 DPP10 rs4849436 116536175 A G 0.07 8.34E-01 8.03E-01 3.23E-02 3.10E-02 6.97E-01 6.59E-01 9.61E-02

2 DPP10 rs13425437 116550707 T G 0.07 9.28E-01 8.76E-01 5.30E-02 5.19E-02 5.75E-01 5.50E-01 1.02E-01

Supplementary Table 3

Results of asthma meta-analysis for previously reported genes in subjects of European ancestry from genome-wide association studies and positional

cloning studies of asthma

Gene Marker Position P_random P_fixed P_random P_fixed P_random P_fixed

Chromosome

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset +

severe + industrial

asthma)

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

2 DPP10 rs2199885 116553559 G T 0.32 2.03E-01 1.15E-01 3.38E-01 8.09E-02 1.51E-01 7.98E-02 3.12E-02

2 DPP10 rs10181163 116558262 A G 0.13 8.82E-01 8.87E-01 3.19E-02 3.19E-02 3.59E-01 3.61E-01 3.64E-01

2 rs1480501 116570583 T C 0.13 8.25E-01 8.27E-01 4.87E-02 4.87E-02 3.96E-01 4.00E-01 4.21E-01

2 DPP10 rs7599272 116584108 C T 0.05 3.89E-01 3.89E-01 2.50E-01 2.50E-01 1.14E-01 1.14E-01 8.94E-01

2 DPP10 rs17543960 116586663 T G 0.07 9.33E-01 8.73E-01 1.00E-01 7.91E-02 5.46E-01 4.51E-01 5.67E-02

2 DPP10 rs6727625 116588018 T C 0.31 2.69E-01 2.15E-01 3.56E-01 1.50E-01 1.81E-01 1.54E-01 1.29E-01

2 DPP10 rs6707419 116589445 A G 0.67 3.68E-01 2.18E-01 3.38E-01 3.39E-01 5.93E-01 5.09E-01 2.41E-01

2 DPP10 rs6761795 116592030 C A 0.29 2.65E-01 1.15E-01 9.41E-01 8.16E-01 3.70E-01 2.95E-01 5.69E-02

2 DPP10 rs1480488 116607942 A C 0.32 8.25E-01 6.90E-01 3.73E-01 3.73E-01 5.26E-01 4.83E-01 1.67E-01

2 DPP10 rs7579948 116610556 A G 0.20 8.23E-01 7.66E-01 8.39E-01 8.39E-01 8.12E-01 8.12E-01 7.47E-01

2 DPP10 rs17045577 116621599 C T 0.24 7.08E-01 6.58E-01 9.59E-01 9.59E-01 5.57E-01 5.57E-01 6.83E-01

2 DPP10 rs2009838 116624720 C T 0.24 6.46E-01 6.46E-01 8.15E-01 8.15E-01 4.35E-01 4.35E-01 9.03E-01

2 DPP10 rs11123333 116625721 T C 0.42 2.00E-01 6.04E-02 1.92E-01 7.73E-02 9.64E-02 3.40E-02 1.34E-02

2 DPP10 rs2127701 116639935 A G 0.25 6.42E-01 6.42E-01 9.48E-01 9.48E-01 4.97E-01 4.97E-01 8.66E-01

2 DPP10 rs4849449 116672237 C T 0.43 1.51E-01 4.88E-02 3.40E-01 1.99E-01 1.34E-01 7.49E-02 2.80E-02

2 DPP10 rs12463848 116683275 T G 0.08 5.28E-01 5.28E-01 6.99E-01 6.53E-01 9.15E-01 9.15E-01 6.58E-01

2 DPP10 rs2010823 116692536 C T 0.10 1.08E-01 1.08E-01 1.60E-01 6.13E-02 8.92E-02 6.46E-02 1.63E-01

2 rs11677817 116694955 C G 0.45 3.91E-01 2.20E-01 4.59E-01 2.47E-01 1.79E-01 5.99E-02 2.78E-02

2 rs2901453 116697111 A G 0.45 3.68E-01 2.19E-01 5.01E-01 2.86E-01 1.57E-01 5.56E-02 3.98E-02

2 DPP10 rs4849451 116723873 G A 0.09 8.99E-02 8.99E-02 1.54E-01 7.18E-02 5.28E-02 3.94E-02 2.24E-01

2 DPP10 rs13020149 116739298 A G 0.26 5.30E-01 5.30E-01 9.77E-01 9.77E-01 3.96E-01 3.96E-01 9.60E-01

2 DPP10 rs1024096 116768266 T C 0.46 1.72E-01 7.11E-02 3.08E-01 2.02E-01 7.76E-02 3.99E-02 4.90E-02

2 DPP10 rs6735305 116771352 T C 0.79 9.02E-01 6.51E-01 7.06E-01 7.06E-01 9.02E-01 9.70E-01 1.06E-01

2 DPP10 rs1587944 116775090 A C 0.45 1.61E-01 6.08E-02 2.65E-01 1.62E-01 7.80E-02 4.02E-02 3.59E-02

2 DPP10 rs1505757 116781484 A C 0.46 1.57E-01 6.02E-02 3.33E-01 2.19E-01 7.69E-02 3.79E-02 4.36E-02

2 DPP10 rs10496515 116787683 T C 0.09 6.50E-02 6.50E-02 1.32E-01 3.09E-02 4.92E-02 2.42E-02 5.26E-02

2 DPP10 rs2221482 116788404 G A 0.38 1.48E-01 1.48E-01 3.93E-01 2.17E-01 5.33E-02 3.70E-02 2.59E-01

2 DPP10 rs1472780 116788992 G T 0.27 1.27E-02 2.72E-03 4.55E-01 6.08E-01 8.31E-02 2.38E-02 5.55E-02

2 DPP10 rs12614334 116789226 G A 0.46 3.57E-01 2.20E-01 3.62E-01 1.93E-01 1.49E-01 8.63E-02 4.57E-02

2 DPP10 rs7586235 116796657 T C 0.19 7.91E-02 7.91E-02 2.26E-01 2.26E-01 1.46E-01 1.46E-01 4.08E-01

2 DPP10 rs13015836 116797227 G A 0.46 2.03E-01 1.20E-01 4.74E-01 2.88E-01 1.71E-01 1.22E-01 4.47E-02

2 DPP10 rs17045802 116797239 A G 0.11 6.59E-02 6.59E-02 3.79E-01 2.54E-01 5.70E-02 4.93E-02 3.10E-01

2 DPP10 rs13024154 116798838 T G 0.26 4.83E-01 4.83E-01 8.45E-01 8.45E-01 3.65E-01 3.65E-01 9.66E-01

2 DPP10 rs6751658 116816630 A G 0.28 4.82E-01 4.82E-01 3.35E-01 3.35E-01 1.97E-01 1.97E-01 9.35E-01

2 DPP10 rs11123348 116843027 G A 0.27 4.51E-01 4.51E-01 3.87E-01 3.87E-01 2.42E-01 2.42E-01 9.05E-01

2 DPP10 rs1394994 116846887 A G 0.08 5.60E-01 5.60E-01 1.00E+00 1.00E+00 9.37E-01 9.37E-01 8.44E-01

2 DPP10 rs13023630 116849174 G T 0.44 2.27E-01 1.53E-01 3.09E-01 3.08E-01 1.21E-01 1.18E-01 2.41E-01

2 DPP10 rs17045852 116851374 C T 0.34 3.77E-01 3.77E-01 3.27E-01 2.93E-01 2.19E-01 2.19E-01 4.86E-01

2 DPP10 rs1472779 116852268 T C 0.44 1.86E-01 1.09E-01 2.91E-01 2.88E-01 9.68E-02 8.97E-02 1.95E-01

2 DPP10 rs4616491 116886017 C T 0.40 8.02E-01 9.03E-01 9.87E-01 9.87E-01 9.49E-01 9.09E-01 2.65E-01

2 DPP10 rs4849472 116896360 G T 0.40 2.77E-01 2.40E-01 3.53E-01 3.53E-01 2.34E-01 2.35E-01 2.90E-01

2 DPP10 rs11681836 116899350 T C 0.41 2.78E-01 2.14E-01 3.33E-01 3.33E-01 1.83E-01 1.69E-01 2.41E-01

2 DPP10 rs4849476 116900160 T C 0.41 2.83E-01 2.32E-01 3.46E-01 3.46E-01 1.79E-01 1.64E-01 2.52E-01

2 DPP10 rs17550669 116913674 C T 0.53 2.08E-01 1.59E-01 2.51E-01 2.51E-01 1.04E-01 1.03E-01 2.99E-01

2 DPP10 rs4849478 116915777 C T 0.40 3.67E-01 3.20E-01 3.40E-01 3.40E-01 2.87E-01 2.86E-01 2.54E-01

2 DPP10 rs4849479 116930606 G A 0.50 2.86E-01 2.86E-01 6.34E-02 6.34E-02 7.40E-02 7.51E-02 4.48E-01

2 DPP10 rs12619029 116938226 A G 0.27 1.95E-01 1.89E-01 5.75E-02 5.75E-02 1.10E-01 1.10E-01 5.73E-01

2 DPP10 rs6742479 116941200 G T 0.83 2.37E-01 2.28E-01 9.36E-01 8.96E-01 7.08E-01 5.45E-01 9.98E-02

2 DPP10 rs4849481 116941964 G A 0.26 2.10E-01 2.04E-01 6.42E-02 6.42E-02 1.16E-01 1.16E-01 6.51E-01

2 DPP10 rs4849482 116942450 G T 0.83 2.28E-01 2.09E-01 9.69E-01 9.52E-01 6.82E-01 5.30E-01 1.10E-01

2 DPP10 rs2421599 116947912 A G 0.56 7.47E-01 8.79E-01 1.39E-01 7.46E-02 3.30E-01 3.70E-01 1.19E-01

2 DPP10 rs2901472 116948175 C A 0.55 7.05E-01 8.14E-01 1.46E-01 6.92E-02 2.52E-01 2.70E-01 1.65E-01

2 DPP10 rs2130980 116966393 A C 0.51 5.00E-01 5.00E-01 8.42E-02 8.42E-02 1.34E-01 1.34E-01 8.99E-01

2 DPP10 rs1002233 116968220 A G 0.37 2.21E-01 2.21E-01 6.46E-02 6.46E-02 3.70E-02 3.70E-02 8.53E-01

2 DPP10 rs11683338 116971317 A G 0.37 2.51E-01 2.51E-01 5.73E-02 5.73E-02 3.62E-02 3.62E-02 9.10E-01

2 DPP10 rs2172181 116972805 G T 0.89 5.07E-01 4.81E-01 7.81E-01 8.15E-01 8.43E-01 8.74E-01 7.33E-02

2 DPP10 rs2130981 116973091 C T 0.89 4.42E-01 4.00E-01 7.32E-01 7.48E-01 7.16E-01 5.93E-01 5.11E-02

2 DPP10 rs11691675 116973471 G A 0.89 4.34E-01 3.99E-01 8.15E-01 8.61E-01 6.44E-01 5.32E-01 6.85E-02

2 rs10200752 116975245 T C 0.51 5.64E-01 5.64E-01 9.58E-02 9.58E-02 1.55E-01 1.55E-01 8.85E-01

2 DPP10 rs1948364 116976207 G A 0.89 5.27E-01 5.36E-01 8.29E-01 8.76E-01 7.63E-01 6.70E-01 3.23E-02

2 DPP10 rs12471941 116993917 G A 0.51 3.72E-01 3.72E-01 7.41E-02 7.41E-02 7.79E-02 7.79E-02 8.43E-01

2 DPP10 rs7582453 117001435 T G 0.51 3.62E-01 3.62E-01 6.31E-02 6.31E-02 6.86E-02 6.86E-02 8.63E-01

Supplementary Table 3

Results of asthma meta-analysis for previously reported genes in subjects of European ancestry from genome-wide association studies and positional

cloning studies of asthma

Gene Marker Position P_random P_fixed P_random P_fixed P_random P_fixed

Chromosome

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset +

severe + industrial

asthma)

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

2 rs6748780 117005475 T C 0.89 4.39E-01 4.15E-01 7.89E-01 8.04E-01 6.25E-01 5.03E-01 6.14E-02

2 DPP10 rs6750326 117008752 T C 0.36 7.56E-01 7.56E-01 1.96E-02 1.96E-02 2.59E-01 2.77E-01 2.39E-01

2 DPP10 rs1388410 117010179 C T 0.54 6.27E-01 6.30E-01 4.85E-02 4.85E-02 7.41E-02 7.41E-02 7.22E-01

2 DPP10 rs1491547 117012012 G A 0.37 1.69E-01 1.69E-01 1.56E-02 1.56E-02 1.03E-02 1.03E-02 9.10E-01

2 DPP10 rs1986494 117021249 A G 0.87 6.05E-01 6.46E-01 9.39E-01 9.29E-01 6.93E-01 6.15E-01 1.62E-01

2 DPP10 rs4423607 117026027 T C 0.36 7.54E-01 7.54E-01 3.13E-02 2.54E-02 8.49E-02 8.66E-02 3.96E-01

2 DPP10 rs4849502 117034316 T C 0.87 5.77E-01 6.11E-01 9.85E-01 9.85E-01 7.23E-01 6.32E-01 1.26E-01

2 DPP10 rs1986687 117035748 T G 0.87 5.91E-01 6.21E-01 9.96E-01 9.82E-01 7.42E-01 6.43E-01 1.36E-01

2 DPP10 rs6742579 117036517 C T 0.50 3.84E-01 3.84E-01 3.88E-02 3.19E-02 6.13E-02 6.13E-02 8.09E-01

2 DPP10 rs13008798 117037046 C T 0.37 1.53E-01 1.53E-01 2.35E-02 2.35E-02 1.46E-02 1.46E-02 9.67E-01

2 DPP10 rs12467804 117037996 G A 0.14 3.46E-01 3.46E-01 7.06E-01 6.19E-01 8.03E-01 8.42E-01 2.28E-01

2 DPP10 rs17553584 117053202 G A 0.17 6.71E-01 6.71E-01 7.83E-01 7.83E-01 7.00E-01 6.58E-01 2.92E-01

2 DPP10 rs10496522 117058573 C T 0.17 9.88E-01 9.88E-01 7.25E-01 7.32E-01 5.01E-01 4.93E-01 4.28E-01

2 DPP10 rs1442772 117069299 G A 0.36 7.84E-01 7.84E-01 3.21E-02 2.01E-02 1.10E-01 1.19E-01 2.97E-01

2 DPP10 rs1442774 117070073 A G 0.81 7.75E-01 7.75E-01 8.65E-01 8.65E-01 7.17E-01 7.17E-01 4.82E-01

2 DPP10 rs2099878 117072884 T C 0.29 9.42E-01 9.42E-01 6.22E-02 6.22E-02 4.12E-01 4.12E-01 8.18E-01

2 DPP10 rs2120007 117086493 G A 0.47 5.23E-01 5.23E-01 6.28E-02 6.28E-02 1.33E-01 1.33E-01 9.42E-01

2 DPP10 rs2584980 117091721 C T 0.46 6.17E-01 6.17E-01 2.77E-02 2.77E-02 1.65E-01 1.65E-01 8.91E-01

2 DPP10 rs2709245 117101086 C T 0.47 4.39E-01 4.39E-01 6.58E-02 6.58E-02 1.51E-01 1.51E-01 9.20E-01

2 DPP10 rs11123389 117127639 C T 0.62 6.30E-01 6.30E-01 9.47E-02 9.47E-02 3.62E-01 3.62E-01 8.85E-01

2 DPP10 rs7604050 117136491 A G 0.37 5.51E-01 5.51E-01 7.37E-02 6.58E-02 4.41E-01 4.41E-01 8.12E-01

2 DPP10 rs4525709 117142633 G A 0.49 4.18E-01 3.04E-01 1.25E-01 1.25E-01 8.67E-01 8.67E-01 4.97E-01

2 DPP10 rs7564632 117153937 C T 0.47 6.13E-01 5.07E-01 2.84E-01 2.84E-01 8.53E-01 8.53E-01 5.89E-01

2 rs10183487 117159607 A G 0.03 6.70E-02 6.70E-02 6.05E-02 6.05E-02 7.82E-01 3.78E-01 1.35E-02

2 DPP10 rs17046287 117172265 A G 0.22 1.74E-01 1.74E-01 1.08E-01 1.08E-01 7.30E-01 7.30E-01 8.81E-01

2 DPP10 rs10167828 117179726 A G 0.48 6.84E-01 6.84E-01 2.21E-01 2.21E-01 5.38E-01 5.38E-01 6.66E-01

2 DPP10 rs7582076 117185047 A C 0.48 6.85E-01 5.16E-01 2.63E-01 2.63E-01 7.53E-01 7.53E-01 5.05E-01

2 DPP10 rs1442763 117190092 C T 0.48 4.37E-01 4.37E-01 2.23E-01 2.23E-01 6.98E-01 6.98E-01 6.60E-01

2 rs12996245 117201358 G A 0.40 3.81E-02 3.81E-02 2.32E-01 2.32E-01 1.06E-01 1.06E-01 6.33E-01

2 rs6760948 117212791 A G 0.56 7.84E-01 7.84E-01 2.95E-02 2.95E-02 8.11E-01 8.04E-01 2.61E-01

2 DPP10 rs17732795 117233088 A G 0.18 3.38E-01 3.38E-01 4.34E-01 4.34E-01 2.61E-01 2.61E-01 7.65E-01

2 DPP10 rs6705249 117238325 A G 0.56 2.53E-01 2.53E-01 2.37E-02 2.37E-02 5.86E-01 4.91E-01 2.39E-01

2 rs908254 117240064 T G 0.35 7.12E-02 5.47E-02 1.91E-01 1.91E-01 1.47E-01 1.18E-01 3.54E-01

2 DPP10 rs9308733 117245371 G A 0.56 2.79E-01 2.79E-01 1.20E-02 1.20E-02 7.54E-01 7.46E-01 4.55E-01

2 DPP10 rs1515141 117247307 C T 0.56 2.75E-01 2.75E-01 2.65E-02 2.65E-02 6.10E-01 5.44E-01 3.31E-01

2 DPP10 rs7579812 117253809 T C 0.38 2.16E-02 1.01E-02 6.69E-02 6.69E-02 1.21E-01 8.18E-02 2.51E-01

2 rs1515126 117259099 A G 0.60 8.84E-01 8.84E-01 1.60E-01 1.21E-01 9.34E-01 9.13E-01 2.45E-01

2 DPP10 rs2048762 117263684 T G 0.38 1.40E-02 9.07E-03 7.90E-02 7.90E-02 9.67E-02 6.87E-02 2.83E-01

2 rs1983308 117271401 C T 0.39 1.08E-01 3.39E-02 6.39E-02 6.39E-02 3.11E-01 1.77E-01 9.87E-02

2 DPP10 rs1515132 117275165 T C 0.36 1.78E-02 9.72E-03 2.20E-01 2.20E-01 4.11E-02 2.88E-02 3.32E-01

2 rs1515128 117282358 A G 0.36 4.11E-01 3.11E-01 3.59E-01 3.59E-01 3.01E-01 2.28E-01 2.97E-01

2 rs6723540 117292395 C T 0.39 4.81E-02 2.53E-02 8.16E-02 8.16E-02 1.93E-01 1.21E-01 2.04E-01

2 rs10496528 117297207 T C 0.39 5.17E-02 1.94E-02 7.35E-02 7.35E-02 2.14E-01 1.19E-01 1.60E-01

2 DPP10 rs10496529 117298111 G T 0.38 1.89E-02 1.08E-02 8.08E-02 8.08E-02 1.09E-01 7.54E-02 2.68E-01

2 rs1515138 117307221 A G 0.39 4.84E-02 2.16E-02 8.92E-02 8.92E-02 1.73E-01 1.01E-01 1.99E-01

5 PDE4D rs159743 58253229 A G 0.39 8.63E-01 8.52E-01 3.85E-01 3.85E-01 6.28E-01 5.68E-01 2.41E-01

5 PDE4D rs2968007 58259555 C A 0.65 6.81E-01 7.25E-01 7.23E-01 7.23E-01 7.39E-01 7.17E-01 1.55E-01

5 PDE4D rs159722 58273640 T C 0.69 5.21E-01 5.21E-01 7.97E-01 7.97E-01 3.54E-01 3.54E-01 7.67E-01

5 PDE4D rs10069162 58292543 A C 0.15 8.55E-01 8.55E-01 6.47E-01 6.47E-01 9.79E-01 9.79E-01 9.90E-01

5 PDE4D rs12655332 58293409 C A 0.08 4.44E-01 4.04E-01 9.22E-01 9.22E-01 7.61E-01 7.61E-01 8.33E-01

5 PDE4D rs702524 58295326 T C 0.61 1.59E-01 1.59E-01 8.14E-01 7.52E-01 1.79E-01 1.79E-01 6.19E-01

5 PDE4D rs11959349 58301130 A C 0.15 8.80E-01 8.80E-01 6.34E-01 6.34E-01 9.54E-01 9.54E-01 9.87E-01

5 PDE4D rs3805556 58320040 G A 0.84 4.91E-01 4.91E-01 9.72E-01 9.72E-01 3.10E-01 3.10E-01 8.65E-01

5 PDE4D rs1553114 58322382 C T 0.84 5.01E-01 5.01E-01 9.61E-01 9.61E-01 3.40E-01 3.40E-01 8.94E-01

5 PDE4D rs13355401 58330116 A G 0.13 1.23E-01 1.13E-01 9.17E-01 9.17E-01 1.51E-01 1.51E-01 6.53E-01

5 PDE4D rs7714708 58330771 A G 0.65 1.04E-01 1.04E-01 7.31E-01 7.31E-01 3.49E-01 3.49E-01 8.90E-01

5 PDE4D rs2968014 58333638 A G 0.85 5.22E-01 5.22E-01 6.32E-01 6.32E-01 3.81E-01 3.81E-01 6.32E-01

5 PDE4D rs7727206 58337368 T G 0.20 1.19E-02 1.19E-02 4.99E-01 4.99E-01 2.99E-02 2.99E-02 8.21E-01

5 PDE4D rs1546221 58338737 G A 0.13 1.25E-01 1.13E-01 9.05E-01 9.05E-01 7.10E-02 7.10E-02 6.39E-01

5 PDE4D rs4479801 58340256 C T 0.13 9.19E-02 8.14E-02 8.97E-01 8.97E-01 3.31E-02 3.31E-02 5.81E-01

5 PDE4D rs1874858 58349317 G A 0.07 8.09E-02 8.09E-02 3.62E-01 3.62E-01 3.21E-01 3.21E-01 6.85E-01

Supplementary Table 3

Results of asthma meta-analysis for previously reported genes in subjects of European ancestry from genome-wide association studies and positional

cloning studies of asthma

Gene Marker Position P_random P_fixed P_random P_fixed P_random P_fixed

Chromosome

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset +

severe + industrial

asthma)

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

5 PDE4D rs1078368 58353622 C T 0.55 3.50E-01 3.30E-01 7.14E-01 7.14E-01 4.21E-01 4.27E-01 3.90E-01

5 PDE4D rs2291851 58367569 C T 0.07 1.24E-01 1.24E-01 3.31E-01 3.31E-01 4.51E-01 4.51E-01 7.32E-01

5 PDE4D rs1353747 58373238 T G 0.10 5.89E-01 5.89E-01 9.13E-01 9.00E-01 9.77E-01 9.77E-01 4.82E-01

5 PDE4D rs1498609 58380275 T C 0.32 7.65E-01 7.76E-01 5.96E-01 5.96E-01 5.11E-01 5.11E-01 6.00E-01

5 PDE4D rs2968019 58380905 C T 0.55 7.77E-01 7.72E-01 8.25E-01 8.25E-01 8.17E-01 8.17E-01 9.34E-01

5 PDE4D rs16889129 58385639 G A 0.13 4.43E-01 3.99E-01 8.34E-01 8.34E-01 4.29E-01 3.94E-01 1.90E-01

5 PDE4D rs10514870 58387085 A G 0.06 2.79E-01 2.79E-01 1.92E-01 1.92E-01 9.62E-01 9.62E-01 9.64E-01

5 PDE4D rs2968009 58387364 G A 0.33 1.08E-01 1.08E-01 8.50E-01 8.40E-01 3.39E-02 3.39E-02 5.97E-01

5 PDE4D rs1498599 58390789 T C 0.66 1.50E-01 1.50E-01 3.45E-01 3.45E-01 7.05E-02 7.05E-02 9.93E-01

5 PDE4D rs17720639 58393688 A G 0.36 6.86E-01 6.85E-01 1.43E-01 1.43E-01 8.65E-01 8.65E-01 8.08E-01

5 PDE4D rs2409625 58399491 A C 0.12 5.56E-01 4.37E-01 4.70E-01 4.69E-01 2.00E-01 1.55E-01 1.97E-01

5 PDE4D rs6892860 58401006 C T 0.19 2.48E-02 2.48E-02 5.68E-01 5.68E-01 5.30E-02 5.30E-02 8.96E-01

5 PDE4D rs950446 58404660 G A 0.32 8.50E-01 8.65E-01 2.74E-01 2.74E-01 8.73E-01 8.73E-01 6.25E-01

5 PDE4D rs11739293 58408694 C T 0.33 1.05E-01 1.05E-01 9.89E-01 9.55E-01 4.34E-02 4.34E-02 5.38E-01

5 PDE4D rs1391651 58412212 A G 0.64 1.79E-01 1.79E-01 2.18E-01 2.18E-01 5.35E-02 5.35E-02 9.65E-01

5 PDE4D rs10065699 58419901 C T 0.26 7.93E-01 7.93E-01 5.66E-01 5.66E-01 9.22E-01 9.22E-01 8.44E-01

5 PDE4D rs2968018 58421539 C T 0.23 1.72E-01 1.72E-01 8.65E-01 9.63E-01 1.83E-01 1.83E-01 9.50E-01

5 PDE4D rs10940640 58423556 T C 0.10 7.90E-01 7.90E-01 6.65E-01 6.65E-01 5.41E-01 5.41E-01 8.90E-01

5 PDE4D rs986067 58424151 C T 0.04 5.99E-02 5.99E-02 8.32E-01 8.32E-01 3.48E-02 3.48E-02 7.99E-01

5 PDE4D rs2910641 58432005 T C 0.81 7.83E-01 7.83E-01 9.59E-01 9.59E-01 6.76E-01 6.76E-01 9.24E-01

5 PDE4D rs6865647 58434958 A G 0.13 6.04E-01 5.80E-01 4.29E-01 4.06E-01 2.02E-01 1.35E-01 3.70E-02

5 PDE4D rs17721878 58442755 T C 0.34 3.08E-01 2.59E-01 3.67E-01 3.67E-01 5.56E-01 5.56E-01 7.39E-01

5 PDE4D rs10052657 58443528 C A 0.20 9.73E-01 9.73E-01 4.05E-01 4.05E-01 7.69E-01 7.69E-01 8.10E-01

5 PDE4D rs1115728 58443782 T C 0.38 4.62E-01 4.62E-01 9.23E-01 9.23E-01 7.39E-01 7.39E-01 9.52E-01

5 PDE4D rs10071163 58445030 G A 0.64 2.03E-01 2.03E-01 3.66E-01 3.47E-01 4.55E-01 4.55E-01 6.75E-01

5 PDE4D rs6886791 58447527 G A 0.10 9.25E-01 7.83E-01 2.89E-01 2.89E-01 9.19E-01 8.83E-01 3.68E-01

5 PDE4D rs13174180 58454144 T C 0.12 3.97E-01 4.03E-01 9.93E-01 9.93E-01 3.21E-01 3.21E-01 7.27E-01

5 PDE4D rs10068809 58456103 C T 0.14 4.90E-01 4.90E-01 6.30E-01 6.30E-01 7.88E-01 7.88E-01 9.70E-01

5 PDE4D rs10035950 58458767 T G 0.18 2.11E-01 2.11E-01 8.43E-01 8.91E-01 5.04E-01 4.90E-01 4.02E-01

5 PDE4D rs13186012 58462955 A G 0.17 8.84E-01 9.45E-01 6.00E-02 6.00E-02 1.51E-01 1.38E-01 2.48E-01

5 PDE4D rs13176475 58464556 C T 0.26 8.43E-01 8.43E-01 8.55E-02 8.55E-02 6.13E-01 6.98E-01 3.08E-02

5 PDE4D rs997421 58465399 C T 0.10 9.77E-01 9.31E-01 7.50E-01 7.59E-01 4.41E-01 3.92E-01 2.38E-01

5 PDE4D rs10059053 58467865 A C 0.22 8.30E-01 8.30E-01 6.57E-01 7.51E-01 9.62E-01 9.62E-01 7.67E-01

5 PDE4D rs10062340 58468170 T C 0.90 9.53E-01 9.17E-01 7.65E-01 7.70E-01 4.46E-01 3.90E-01 2.41E-01

5 PDE4D rs10062176 58472485 A G 0.15 7.51E-01 7.51E-01 8.35E-01 7.96E-01 9.16E-01 8.39E-01 2.57E-01

5 PDE4D rs6869149 58472677 G A 0.23 5.85E-01 5.85E-01 6.46E-01 6.46E-01 8.03E-01 8.03E-01 7.38E-01

5 PDE4D rs10056754 58473875 C A 0.15 6.64E-01 6.64E-01 8.91E-01 8.10E-01 8.27E-01 7.76E-01 3.26E-01

5 PDE4D rs1824788 58476015 T C 0.52 9.57E-01 9.88E-01 2.31E-01 2.31E-01 6.09E-01 6.70E-01 2.79E-01

5 PDE4D rs2409627 58480079 T C 0.16 8.22E-01 8.78E-01 9.71E-02 9.71E-02 1.44E-01 1.27E-01 2.78E-01

5 PDE4D rs16889276 58480270 G A 0.13 4.00E-01 4.79E-01 3.04E-01 3.04E-01 9.05E-01 9.65E-01 8.19E-02

5 PDE4D rs1961 58481150 A G 0.38 8.89E-02 8.89E-02 9.29E-01 9.63E-01 2.12E-01 2.12E-01 7.20E-01

5 PDE4D rs1105577 58484490 T C 0.30 7.88E-01 7.66E-01 4.41E-01 3.25E-01 6.88E-01 7.78E-01 1.48E-01

5 PDE4D rs1345792 58489788 T C 0.61 5.98E-01 5.98E-01 7.51E-01 5.80E-01 2.67E-01 2.48E-01 3.34E-01

5 PDE4D rs6877743 58489948 A C 0.45 6.33E-01 6.27E-01 3.78E-01 4.56E-01 8.77E-01 9.90E-01 8.03E-03

5 PDE4D rs1971940 58496356 C T 0.68 9.82E-01 9.76E-01 3.13E-01 3.19E-01 7.12E-01 8.28E-01 1.94E-02

5 PDE4D rs6874089 58510611 G A 0.23 4.86E-01 4.86E-01 7.58E-01 7.12E-01 5.72E-01 5.72E-01 6.11E-01

5 PDE4D rs10055769 58523521 T C 0.64 4.31E-01 3.85E-01 1.85E-01 1.82E-01 2.51E-01 2.30E-01 1.37E-01

5 PDE4D rs2112957 58527163 T C 0.89 7.39E-01 7.39E-01 6.94E-01 5.78E-01 9.91E-01 9.91E-01 8.70E-01

5 PDE4D rs1439 58534297 G A 0.17 3.19E-01 3.19E-01 9.58E-01 9.58E-01 8.65E-01 8.65E-01 7.38E-01

5 PDE4D rs27727 58536139 T C 0.32 8.39E-01 8.39E-01 2.46E-01 2.46E-01 9.80E-02 7.39E-02 1.86E-01

5 PDE4D rs154224 58536559 T G 0.32 8.86E-01 8.86E-01 2.50E-01 2.50E-01 1.11E-01 8.38E-02 1.78E-01

5 PDE4D rs154222 58536653 T C 0.40 2.83E-01 2.83E-01 1.44E-01 1.44E-01 1.59E-02 1.59E-02 5.68E-01

5 PDE4D rs9292198 58539028 G A 0.29 8.83E-01 8.83E-01 7.69E-01 7.69E-01 2.73E-01 2.44E-01 2.99E-01

5 PDE4D rs1423308 58540054 G A 0.29 4.66E-01 4.45E-01 3.92E-01 3.92E-01 2.41E-01 2.41E-01 4.77E-01

5 PDE4D rs1867724 58542036 A C 0.18 6.95E-01 6.95E-01 9.53E-01 9.52E-01 8.46E-01 8.46E-01 9.23E-01

5 PDE4D rs6867591 58544469 C T 0.08 4.27E-01 2.33E-01 3.43E-01 3.43E-01 3.97E-01 3.19E-01 2.09E-01

5 PDE4D rs467300 58545573 T C 0.14 5.32E-01 5.32E-01 9.95E-01 9.97E-01 8.32E-01 8.32E-01 8.84E-01

5 PDE4D rs425384 58546083 G T 0.14 8.25E-01 8.25E-01 9.48E-01 9.33E-01 8.27E-01 8.27E-01 8.51E-01

5 PDE4D rs6450512 58547258 G A 0.37 6.99E-01 6.99E-01 9.77E-01 9.77E-01 3.48E-01 3.48E-01 8.40E-01

5 PDE4D rs464787 58553675 A C 0.37 5.42E-01 5.42E-01 9.29E-01 9.29E-01 3.04E-01 3.04E-01 8.72E-01

5 PDE4D rs2112956 58556492 A G 0.12 2.63E-01 2.63E-01 2.55E-01 2.55E-01 3.89E-01 3.89E-01 4.96E-01

5 PDE4D rs153968 58558367 C A 0.63 4.56E-01 4.14E-01 7.50E-01 7.50E-01 5.36E-01 5.36E-01 6.46E-01

Supplementary Table 3

Results of asthma meta-analysis for previously reported genes in subjects of European ancestry from genome-wide association studies and positional

cloning studies of asthma

Gene Marker Position P_random P_fixed P_random P_fixed P_random P_fixed

Chromosome

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset +

severe + industrial

asthma)

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

5 PDE4D rs4700325 58560943 G A 0.17 5.57E-01 5.57E-01 5.32E-01 5.32E-01 1.58E-01 1.58E-01 8.86E-01

5 PDE4D rs10059709 58561253 A C 0.12 4.98E-01 4.98E-01 6.84E-01 9.06E-01 2.57E-01 2.57E-01 5.93E-01

5 PDE4D rs27548 58562828 G T 0.69 4.56E-01 4.56E-01 1.74E-01 1.74E-01 9.90E-01 9.90E-01 7.20E-01

5 PDE4D rs27957 58565092 A G 0.26 8.56E-01 8.58E-01 5.73E-01 5.73E-01 6.41E-01 5.85E-01 1.85E-01

5 PDE4D rs10440630 58565393 A G 0.14 6.08E-01 6.19E-01 8.50E-01 8.50E-01 9.13E-01 9.13E-01 5.97E-01

5 PDE4D rs1838733 58569149 C T 0.29 4.73E-01 4.72E-01 2.23E-01 2.23E-01 8.33E-01 8.33E-01 6.97E-01

5 PDE4D rs466978 58569367 T G 0.74 4.95E-01 4.61E-01 3.27E-01 1.63E-01 8.62E-01 7.75E-01 9.24E-02

5 PDE4D rs2061282 58569476 G A 0.08 1.93E-01 1.93E-01 9.33E-01 9.14E-01 1.28E-01 1.28E-01 6.99E-01

5 PDE4D rs17528285 58576604 A G 0.11 4.21E-01 4.21E-01 9.43E-01 9.34E-01 3.26E-01 3.26E-01 5.13E-01

5 PDE4D rs35309 58580405 T C 0.21 7.12E-01 6.18E-01 5.11E-01 4.91E-01 3.55E-01 2.95E-01 2.02E-01

5 PDE4D rs35305 58583988 A C 0.55 4.59E-01 4.57E-01 1.60E-01 1.60E-01 7.78E-01 7.78E-01 5.12E-01

5 PDE4D rs26700 58585074 T G 0.26 9.65E-01 9.97E-01 6.61E-01 6.61E-01 5.88E-01 5.27E-01 1.88E-01

5 PDE4D rs27949 58586580 C T 0.67 2.30E-01 1.32E-01 2.11E-01 2.11E-01 4.77E-01 3.91E-01 1.86E-01

5 PDE4D rs4699939 58588634 A G 0.37 1.37E-01 1.37E-01 4.35E-01 2.25E-01 3.02E-01 3.02E-01 5.06E-01

5 PDE4D rs16889495 58594145 T C 0.10 4.52E-02 4.52E-02 5.55E-01 7.50E-01 2.08E-02 1.84E-02 4.36E-01

5 PDE4D rs17444059 58596474 T C 0.12 7.96E-01 7.96E-01 9.71E-01 5.07E-01 8.45E-01 8.08E-01 1.38E-01

5 PDE4D rs4700328 58598222 G A 0.24 2.57E-01 2.56E-01 3.17E-01 3.17E-01 4.94E-01 4.94E-01 7.03E-01

5 PDE4D rs27723 58599989 G A 0.72 8.30E-01 8.23E-01 1.74E-01 1.74E-01 4.58E-01 3.91E-01 2.27E-01

5 PDE4D rs17528543 58602384 C T 0.07 6.36E-02 6.36E-02 6.83E-01 7.28E-01 2.81E-02 2.81E-02 6.18E-01

5 PDE4D rs17444185 58610721 T C 0.24 3.38E-01 3.38E-01 2.55E-01 2.55E-01 6.02E-01 6.02E-01 9.02E-01

5 rs10491353 58610890 G A 0.14 1.16E-01 8.68E-02 8.64E-01 8.64E-01 1.77E-01 1.65E-01 1.89E-01

5 PDE4D rs27184 58611080 T C 0.45 8.27E-01 8.26E-01 8.18E-01 8.18E-01 8.15E-01 8.15E-01 6.01E-01

5 PDE4D rs1374028 58611588 A G 0.11 2.20E-01 2.08E-01 9.50E-01 9.50E-01 4.03E-01 4.03E-01 5.87E-01

5 PDE4D rs9292201 58618370 T C 0.12 7.14E-01 7.14E-01 8.42E-01 3.86E-01 8.32E-01 7.70E-01 1.03E-01

5 PDE4D rs2028836 58618970 A G 0.24 2.74E-01 2.74E-01 2.32E-01 2.32E-01 5.76E-01 5.76E-01 8.18E-01

5 PDE4D rs28044 58624026 T C 0.22 3.56E-01 4.12E-01 7.39E-01 7.39E-01 4.42E-01 3.98E-01 1.94E-01

5 PDE4D rs27183 58624386 A C 0.57 9.55E-01 9.17E-01 8.26E-01 8.26E-01 5.22E-01 5.22E-01 8.71E-01

5 PDE4D rs17780175 58625543 G A 0.31 8.48E-01 9.85E-01 3.15E-01 3.15E-01 5.65E-01 5.65E-01 5.39E-01

5 PDE4D rs7703022 58631363 C T 0.41 8.65E-01 8.65E-01 2.45E-01 2.36E-01 9.47E-01 9.47E-01 8.58E-01

5 PDE4D rs255647 58641441 C T 0.52 9.48E-01 8.70E-01 4.10E-01 4.10E-01 6.91E-01 6.96E-01 3.88E-01

5 PDE4D rs37353 58647773 T C 0.53 9.53E-01 9.53E-01 2.35E-01 2.35E-01 9.10E-01 9.10E-01 6.30E-01

5 PDE4D rs2013979 58648490 C T 0.34 1.51E-01 1.51E-01 1.85E-01 1.85E-01 1.70E-01 1.54E-01 4.22E-01

5 PDE4D rs13169097 58651954 C T 0.09 6.88E-01 5.19E-01 9.26E-01 8.97E-01 5.97E-01 5.17E-01 2.21E-01

5 PDE4D rs27170 58654263 C T 0.52 9.53E-01 9.51E-01 3.17E-01 3.17E-01 9.59E-01 9.23E-01 4.01E-01

5 PDE4D rs1824159 58654401 C T 0.09 4.64E-01 4.64E-01 9.76E-01 5.27E-01 4.45E-01 3.14E-01 1.95E-01

5 PDE4D rs27171 58654646 A G 0.28 2.84E-01 2.84E-01 7.86E-01 7.86E-01 4.83E-01 4.83E-01 7.45E-01

5 PDE4D rs244570 58656197 G T 0.91 4.18E-01 4.18E-01 7.67E-01 4.36E-01 5.12E-01 5.12E-01 5.65E-01

5 PDE4D rs7443333 58656931 G A 0.21 1.16E-01 1.16E-01 2.01E-01 2.01E-01 2.81E-01 2.81E-01 7.40E-01

5 PDE4D rs17780860 58658855 G A 0.16 8.79E-01 8.79E-01 7.45E-01 5.22E-01 9.76E-01 9.76E-01 6.87E-01

5 PDE4D rs35255 58661886 G A 0.53 9.95E-01 9.05E-01 5.12E-01 5.12E-01 9.15E-01 9.15E-01 4.89E-01

5 PDE4D rs16889615 58665254 C T 0.09 6.56E-01 6.56E-01 3.64E-01 2.75E-01 5.10E-01 5.10E-01 8.21E-01

5 PDE4D rs35258 58669849 G T 0.36 7.21E-01 6.16E-01 9.13E-01 9.13E-01 7.67E-01 7.26E-01 3.25E-01

5 PDE4D rs154024 58671873 C T 0.37 7.05E-01 6.62E-01 9.49E-01 9.49E-01 7.09E-01 7.09E-01 5.69E-01

5 PDE4D rs958851 58675900 G T 0.22 6.54E-01 6.35E-01 5.94E-01 5.94E-01 4.92E-01 4.92E-01 8.29E-01

5 PDE4D rs13176940 58678129 T C 0.38 4.34E-01 3.40E-01 9.59E-01 9.21E-01 7.43E-01 7.86E-01 1.45E-01

5 PDE4D rs35274 58681562 A G 0.44 6.95E-01 7.83E-01 8.23E-01 8.23E-01 5.74E-01 5.74E-01 6.02E-01

5 PDE4D rs40125 58681869 C T 0.74 6.54E-01 6.54E-01 9.43E-01 9.43E-01 5.35E-01 5.35E-01 6.06E-01

5 PDE4D rs35281 58691497 A C 0.63 5.22E-01 5.75E-01 2.25E-01 2.25E-01 7.53E-01 7.53E-01 7.02E-01

5 PDE4D rs35284 58692085 A G 0.37 6.56E-01 5.60E-01 9.61E-01 9.61E-01 7.45E-01 7.45E-01 5.14E-01

5 PDE4D rs35287 58694322 A C 0.52 8.76E-01 8.85E-01 6.32E-01 6.32E-01 9.13E-01 9.13E-01 6.00E-01

5 PDE4D rs17782238 58695063 T C 0.13 8.44E-01 8.98E-01 3.11E-01 3.14E-01 8.28E-01 8.12E-01 3.54E-01

5 PDE4D rs9292206 58697354 G A 0.07 2.21E-01 2.21E-01 9.70E-01 5.71E-01 9.16E-01 8.34E-01 1.71E-01

5 PDE4D rs35289 58698010 C A 0.15 9.35E-01 9.35E-01 8.06E-01 7.85E-01 7.39E-01 7.39E-01 5.60E-01

5 PDE4D rs17782374 58699588 T C 0.19 4.90E-01 4.20E-01 3.26E-01 2.46E-01 6.75E-01 6.54E-01 1.53E-01

5 PDE4D rs1457145 58701879 T G 0.10 5.88E-01 5.88E-01 5.01E-01 5.01E-01 7.40E-01 7.40E-01 9.77E-01

5 PDE4D rs154027 58704426 A G 0.75 5.18E-01 5.18E-01 6.79E-01 6.79E-01 5.70E-01 5.70E-01 6.07E-01

5 PDE4D rs10514865 58711295 A C 0.18 9.13E-01 9.13E-01 1.97E-01 1.97E-01 6.56E-01 6.56E-01 9.17E-01

5 PDE4D rs1823068 58711806 A G 0.15 9.35E-01 9.50E-01 5.48E-01 4.77E-01 9.59E-01 9.59E-01 4.69E-01

5 PDE4D rs181736 58712990 G A 0.40 4.70E-01 3.42E-01 4.84E-01 4.48E-01 9.96E-01 9.84E-01 2.86E-01

5 PDE4D rs2591748 58713256 C T 0.24 1.98E-01 1.88E-01 4.09E-01 3.78E-01 5.15E-01 4.71E-01 2.49E-01

5 PDE4D rs244593 58714777 T C 0.29 3.34E-01 3.04E-01 7.03E-01 7.92E-01 7.64E-01 7.87E-01 3.22E-01

5 PDE4D rs433161 58717413 C T 0.28 5.02E-01 3.94E-01 7.79E-01 9.17E-01 8.07E-01 8.26E-01 2.76E-01

Supplementary Table 3

Results of asthma meta-analysis for previously reported genes in subjects of European ancestry from genome-wide association studies and positional

cloning studies of asthma

Gene Marker Position P_random P_fixed P_random P_fixed P_random P_fixed

Chromosome

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset +

severe + industrial

asthma)

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

5 PDE4D rs1445918 58717614 C T 0.18 5.39E-01 5.16E-01 3.73E-01 3.73E-01 8.00E-01 7.41E-01 1.45E-01

5 PDE4D rs444552 58717783 G A 0.28 5.61E-01 4.35E-01 7.67E-01 9.12E-01 8.26E-01 8.46E-01 2.47E-01

5 PDE4D rs6887017 58718578 C T 0.16 2.85E-01 2.85E-01 7.30E-01 7.30E-01 6.68E-01 6.68E-01 9.13E-01

5 PDE4D rs403687 58721607 C T 0.61 6.99E-01 7.48E-01 4.16E-01 4.16E-01 7.56E-01 7.56E-01 6.74E-01

5 PDE4D rs11738043 58722348 A G 0.05 8.45E-01 8.35E-01 2.77E-01 1.39E-01 1.64E-01 1.73E-01 2.68E-01

5 PDE4D rs17783275 58722436 G A 0.13 5.63E-01 5.34E-01 4.49E-01 4.46E-01 5.34E-01 5.34E-01 5.57E-01

5 PDE4D rs387647 58722649 G A 0.27 6.19E-01 4.56E-01 7.95E-01 9.60E-01 8.71E-01 8.94E-01 1.97E-01

5 PDE4D rs378869 58724462 C T 0.38 7.08E-01 7.05E-01 8.12E-01 8.35E-01 8.68E-01 8.61E-01 4.41E-01

5 PDE4D rs258111 58734281 A G 0.38 8.43E-01 8.01E-01 7.91E-01 8.37E-01 7.90E-01 7.63E-01 3.66E-01

5 PDE4D rs1348709 58742868 T C 0.11 5.23E-01 5.23E-01 7.08E-01 7.08E-01 5.64E-01 5.64E-01 8.83E-01

5 PDE4D rs1348710 58742896 T C 0.11 5.29E-01 5.29E-01 6.50E-01 6.50E-01 5.42E-01 5.42E-01 9.10E-01

5 PDE4D rs258128 58746648 A G 0.27 5.85E-01 3.93E-01 8.53E-01 9.85E-01 8.69E-01 8.69E-01 1.71E-01

5 PDE4D rs171801 58747585 C T 0.29 5.29E-01 3.08E-01 9.75E-01 6.19E-01 9.70E-01 8.68E-01 6.75E-02

5 PDE4D rs244568 58751539 C T 0.43 8.66E-01 9.96E-01 8.77E-01 9.90E-01 7.96E-01 7.70E-01 2.77E-01

5 PDE4D rs13165581 58751590 G A 0.06 1.97E-01 1.41E-01 3.39E-01 3.39E-01 4.66E-01 4.44E-01 3.67E-01

5 PDE4D rs2547918 58752851 G A 0.23 9.26E-01 9.26E-01 9.01E-01 9.01E-01 6.59E-01 6.59E-01 7.54E-01

5 PDE4D rs1379297 58753210 T C 0.20 5.90E-01 5.90E-01 3.99E-01 3.99E-01 6.74E-01 6.74E-01 8.25E-01

5 PDE4D rs2702373 58755650 T C 0.82 6.45E-01 6.45E-01 6.92E-01 7.08E-01 6.12E-01 6.12E-01 8.96E-01

5 PDE4D rs2607347 58757366 T C 0.44 5.03E-01 4.95E-01 5.46E-01 4.65E-01 7.49E-01 7.38E-01 4.43E-01

5 PDE4D rs13160457 58758006 G A 0.25 4.74E-01 4.73E-01 8.66E-01 7.91E-01 8.08E-01 8.34E-01 4.05E-01

5 PDE4D rs918583 58758175 C T 0.34 4.20E-01 3.99E-01 8.58E-01 8.58E-01 4.91E-01 4.91E-01 5.78E-01

5 PDE4D rs2081092 58766042 A G 0.10 3.06E-01 3.06E-01 8.17E-01 8.17E-01 4.36E-01 4.36E-01 8.14E-01

5 PDE4D rs13190249 58768418 G A 0.08 1.76E-01 1.13E-01 3.09E-01 3.09E-01 1.33E-01 1.33E-01 5.36E-01

5 PDE4D rs12518641 58768607 C T 0.31 6.04E-01 6.04E-01 7.91E-01 7.91E-01 3.45E-01 3.45E-01 5.65E-01

5 PDE4D rs1824154 58773464 G A 0.09 5.64E-01 5.64E-01 2.84E-01 2.84E-01 4.04E-01 4.04E-01 5.19E-01

5 PDE4D rs16889853 58777248 T C 0.13 3.96E-01 3.55E-01 6.58E-01 7.08E-01 4.25E-01 4.12E-01 3.40E-01

5 PDE4D rs17796040 58790267 C T 0.09 6.17E-01 5.49E-01 2.04E-01 2.04E-01 3.77E-01 3.51E-01 4.00E-01

5 PDE4D rs16889869 58791337 A G 0.12 7.93E-01 6.87E-01 3.20E-01 2.98E-01 5.15E-01 4.81E-01 2.25E-01

5 PDE4D rs294474 58793504 A G 0.33 6.23E-01 6.23E-01 6.72E-01 6.72E-01 4.18E-01 4.18E-01 8.63E-01

5 PDE4D rs992726 58793577 A G 0.20 3.72E-01 3.36E-01 5.88E-01 5.97E-01 2.16E-01 9.47E-02 2.86E-02

5 PDE4D rs10514863 58804895 C T 0.19 3.23E-01 2.89E-01 6.33E-01 6.48E-01 2.19E-01 1.02E-01 2.48E-02

5 PDE4D rs6871710 58806318 T G 0.12 5.66E-01 4.62E-01 5.85E-01 6.00E-01 5.29E-01 5.24E-01 2.38E-01

5 PDE4D rs16889904 58818597 T C 0.31 6.01E-01 6.01E-01 4.28E-01 4.28E-01 1.57E-01 1.57E-01 6.50E-01

5 PDE4D rs17796734 58819100 G A 0.08 3.53E-01 3.47E-01 1.96E-01 1.96E-01 2.91E-01 2.67E-01 3.76E-01

5 PDE4D rs10514862 58833329 A G 0.15 8.61E-01 8.61E-01 5.90E-01 5.90E-01 9.28E-01 7.56E-01 2.70E-01

5 PDE4D rs4551023 58837048 C T 0.26 3.27E-01 2.67E-01 3.38E-01 3.38E-01 3.03E-01 2.43E-01 2.24E-01

5 PDE4D rs12186707 58840136 G A 0.14 8.92E-01 8.43E-01 4.03E-01 4.03E-01 3.34E-01 3.34E-01 4.83E-01

5 PDE4D rs4326095 58840294 G A 0.26 2.78E-01 2.17E-01 3.60E-01 3.60E-01 2.85E-01 2.30E-01 2.35E-01

5 PDE4D rs6450521 58846123 T C 0.49 5.55E-01 5.55E-01 8.60E-01 9.89E-01 4.68E-01 4.60E-01 3.37E-01

5 PDE4D rs7717802 58847380 G A 0.41 2.08E-01 1.83E-01 8.04E-01 6.81E-01 3.15E-01 3.09E-01 2.27E-01

5 PDE4D rs16889921 58848788 T C 0.15 9.93E-01 9.93E-01 5.77E-01 5.77E-01 7.53E-01 6.09E-01 3.11E-01

5 PDE4D rs6896121 58850275 C T 0.06 1.40E-01 1.40E-01 3.60E-01 2.96E-01 7.81E-02 7.81E-02 4.84E-01

5 PDE4D rs7712329 58851417 C T 0.33 9.64E-01 9.64E-01 2.69E-01 2.30E-01 9.76E-01 9.47E-01 2.63E-01

5 PDE4D rs7728286 58854479 C T 0.33 8.78E-01 8.78E-01 3.13E-01 2.45E-01 8.80E-01 8.35E-01 1.98E-01

5 PDE4D rs1876209 58865534 G A 0.28 5.98E-01 5.98E-01 2.52E-01 2.59E-01 6.13E-01 6.13E-01 7.14E-01

5 PDE4D rs37576 58865902 T C 0.32 8.45E-01 8.45E-01 1.04E-01 8.93E-02 2.67E-01 2.67E-01 4.83E-01

5 PDE4D rs291122 58867629 T C 0.34 9.23E-01 9.05E-01 8.47E-01 8.47E-01 4.68E-01 2.97E-01 1.90E-02

5 PDE4D rs159195 58869790 C A 0.22 4.72E-01 2.66E-01 1.24E-01 1.16E-01 7.17E-02 3.05E-02 3.90E-02

5 PDE4D rs1870077 58870609 G A 0.25 3.11E-01 2.25E-01 4.83E-01 4.46E-01 3.13E-01 2.47E-01 2.15E-01

5 PDE4D rs11951879 58872538 A G 0.07 4.27E-01 4.27E-01 5.00E-01 5.00E-01 3.42E-01 3.42E-01 7.36E-01

5 PDE4D rs40216 58872707 A G 0.74 6.22E-01 6.22E-01 3.01E-01 2.68E-01 5.12E-01 5.40E-01 1.77E-01

5 PDE4D rs291119 58873835 T C 0.03 1.09E-01 1.09E-01 6.15E-01 6.15E-01 1.35E-01 1.35E-01 4.43E-01

5 PDE4D rs7733296 58873895 T C 0.12 6.60E-02 6.60E-02 1.14E-01 1.14E-01 5.60E-02 5.39E-02 4.15E-01

5 PDE4D rs702543 58878531 C T 0.58 4.96E-01 4.96E-01 3.02E-01 2.28E-01 1.90E-01 1.94E-01 4.19E-01

5 PDE4D rs294482 58881672 G T 0.83 1.41E-02 8.73E-03 8.64E-01 7.48E-01 2.27E-01 1.35E-01 3.12E-02

5 PDE4D rs294478 58885151 T G 0.89 8.75E-02 8.75E-02 4.19E-01 6.98E-01 3.18E-01 2.19E-01 1.17E-01

5 PDE4D rs37579 58889529 C T 0.71 4.31E-01 4.31E-01 8.96E-01 8.96E-01 8.86E-01 8.86E-01 4.90E-01

5 PDE4D rs172362 58892666 A C 0.16 9.08E-02 9.08E-02 7.38E-01 7.28E-01 5.21E-01 5.47E-01 3.88E-01

5 PDE4D rs1395337 58898599 A G 0.75 8.19E-01 8.19E-01 4.97E-01 6.15E-01 7.74E-01 8.15E-01 3.34E-01

5 PDE4D rs295936 58901614 C T 0.96 2.27E-01 2.27E-01 6.04E-01 6.04E-01 1.21E-01 1.21E-01 7.75E-01

5 PDE4D rs294503 58904808 C T 0.03 1.15E-01 1.15E-01 5.54E-01 5.54E-01 1.25E-01 1.25E-01 4.93E-01

5 PDE4D rs294498 58912707 T C 0.79 8.03E-01 8.03E-01 2.82E-01 3.71E-01 5.19E-01 6.05E-01 1.67E-01

Supplementary Table 3

Results of asthma meta-analysis for previously reported genes in subjects of European ancestry from genome-wide association studies and positional

cloning studies of asthma

Gene Marker Position P_random P_fixed P_random P_fixed P_random P_fixed

Chromosome

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset +

severe + industrial

asthma)

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

5 PDE4D rs10514859 58915579 C A 0.10 2.50E-01 1.33E-01 5.68E-01 5.68E-01 2.05E-01 1.69E-01 4.37E-02

5 PDE4D rs295943 58922630 T C 0.88 6.20E-02 6.20E-02 6.08E-01 9.10E-01 3.52E-01 3.02E-01 1.70E-01

5 PDE4D rs296410 58937990 T C 0.49 8.14E-01 8.14E-01 6.52E-01 4.79E-01 9.80E-01 8.29E-01 2.29E-01

5 PDE4D rs17380508 58941526 T C 0.09 1.04E-01 7.78E-02 4.72E-01 4.72E-01 1.68E-01 1.68E-01 5.44E-01

5 PDE4D rs12520633 58943349 A G 0.10 3.02E-01 1.99E-01 6.09E-01 6.09E-01 2.49E-01 2.40E-01 3.65E-02

5 PDE4D rs298014 58948149 C T 0.87 1.89E-01 1.89E-01 9.74E-01 8.93E-01 5.15E-01 3.95E-01 2.62E-02

5 PDE4D rs298045 58959358 C T 0.77 7.49E-02 3.96E-02 7.33E-01 7.33E-01 2.70E-01 1.93E-01 6.95E-02

5 PDE4D rs298034 58972700 G A 0.77 5.98E-02 2.45E-02 7.56E-01 7.56E-01 2.14E-01 1.32E-01 5.45E-02

5 PDE4D rs6863462 58975791 T C 0.38 7.42E-01 8.02E-01 3.73E-01 3.73E-01 8.94E-01 9.61E-01 2.16E-01

5 PDE4D rs298026 58976968 G T 0.38 1.31E-01 1.31E-01 6.73E-01 6.73E-01 1.89E-01 1.89E-01 7.31E-01

5 PDE4D rs297975 58990749 G T 0.66 6.02E-01 5.04E-01 5.53E-01 5.53E-01 8.17E-01 8.06E-01 4.04E-01

5 PDE4D rs1370230 58993398 A G 0.43 2.34E-01 7.66E-02 6.13E-02 4.08E-02 7.06E-01 3.52E-01 5.67E-02

5 PDE4D rs17381667 58997990 A G 0.23 5.36E-01 2.48E-01 6.45E-02 6.45E-02 8.17E-01 5.02E-01 1.06E-01

5 PDE4D rs298060 59002897 T C 0.71 4.93E-01 4.35E-01 6.48E-01 6.48E-01 7.12E-01 7.25E-01 2.57E-01

5 PDE4D rs298067 59013684 A G 0.43 2.24E-01 6.84E-02 7.51E-02 4.03E-02 6.98E-01 3.10E-01 3.96E-02

5 PDE4D rs17382202 59015703 C T 0.23 4.79E-01 1.88E-01 5.72E-02 5.72E-02 7.74E-01 4.28E-01 8.51E-02

5 PDE4D rs298087 59029054 C T 0.80 6.91E-01 6.74E-01 6.12E-01 6.12E-01 8.78E-01 8.78E-01 5.04E-01

5 PDE4D rs4700340 59036834 C T 0.23 5.13E-01 2.38E-01 5.81E-02 5.81E-02 7.87E-01 4.95E-01 1.35E-01

5 PDE4D rs17742447 59049550 T C 0.28 5.85E-01 5.37E-01 7.49E-01 7.49E-01 7.67E-01 7.85E-01 2.08E-01

5 PDE4D rs7701748 59053790 A G 0.57 1.97E-01 4.65E-02 9.97E-02 3.75E-02 6.67E-01 2.81E-01 2.49E-02

5 PDE4D rs1992112 59055811 G A 0.57 2.11E-01 5.62E-02 6.33E-02 3.85E-02 6.85E-01 3.04E-01 3.32E-02

5 PDE4D rs746477 59059627 T C 0.34 5.13E-01 4.10E-01 4.88E-01 4.88E-01 8.27E-01 7.94E-01 3.00E-01

5 PDE4D rs13179321 59063710 A G 0.39 5.19E-01 4.80E-01 6.26E-01 6.26E-01 9.38E-01 9.38E-01 5.99E-01

5 PDE4D rs9292210 59067640 G A 0.26 7.20E-01 5.46E-01 6.57E-01 6.57E-01 9.29E-01 7.72E-01 7.02E-02

5 PDE4D rs13182982 59074367 A G 0.05 5.51E-02 5.51E-02 2.26E-01 2.08E-01 1.40E-02 1.40E-02 9.19E-01

5 PDE4D rs6897073 59075480 A C 0.23 4.40E-01 1.60E-01 7.68E-02 7.68E-02 7.46E-01 4.38E-01 1.21E-01

5 PDE4D rs981230 59075615 C T 0.49 3.43E-01 7.01E-02 1.43E-02 1.43E-02 9.47E-01 4.34E-01 1.70E-02

5 PDE4D rs7732908 59078750 C T 0.14 3.76E-01 3.76E-01 3.37E-01 3.37E-01 7.91E-01 7.75E-01 4.37E-01

5 PDE4D rs4235477 59097039 A G 0.57 1.07E-01 9.16E-02 2.56E-01 1.06E-01 5.07E-01 3.87E-01 1.47E-01

5 PDE4D rs6860907 59105540 T C 0.46 3.51E-01 8.43E-02 4.54E-02 4.54E-02 7.70E-01 4.38E-01 6.05E-02

5 PDE4D rs4699942 59109232 T G 0.46 3.72E-01 1.07E-01 3.76E-02 3.76E-02 8.37E-01 5.06E-01 6.02E-02

5 PDE4D rs11741470 59112007 C T 0.23 6.71E-01 6.25E-01 6.97E-01 6.97E-01 9.91E-01 9.65E-01 2.49E-01

5 PDE4D rs2938784 59147106 T C 0.61 4.68E-02 4.68E-02 1.71E-01 1.71E-01 1.61E-01 1.16E-01 2.65E-01

5 PDE4D rs905834 59149058 A G 0.61 3.72E-02 3.72E-02 1.78E-01 1.78E-01 1.46E-01 1.06E-01 2.76E-01

5 PDE4D rs2938787 59149660 T C 0.20 3.47E-01 2.90E-01 6.85E-01 6.85E-01 4.76E-01 4.43E-01 3.06E-01

5 PDE4D rs2963818 59150562 C T 0.46 2.00E-01 2.00E-01 6.50E-02 6.50E-02 3.20E-01 3.16E-01 4.62E-01

5 PDE4D rs3111173 59153037 G A 0.46 2.42E-01 2.42E-01 5.04E-02 5.04E-02 4.06E-01 3.65E-01 4.16E-01

5 PDE4D rs6869459 59155340 A C 0.60 1.54E-01 1.54E-01 3.32E-01 3.04E-01 2.40E-01 1.88E-01 2.82E-01

5 PDE4D rs6859121 59157514 G A 0.11 6.44E-01 7.43E-01 3.29E-01 1.64E-01 2.36E-01 3.95E-01 1.96E-02

5 PDE4D rs6868846 59164511 G A 0.32 5.26E-01 5.26E-01 7.15E-01 7.15E-01 5.73E-01 5.73E-01 7.38E-01

5 PDE4D rs256350 59176633 T C 0.28 2.29E-01 2.14E-01 9.82E-01 9.82E-01 2.82E-01 2.82E-01 5.89E-01

5 PDE4D rs11951422 59176944 C T 0.27 4.16E-01 4.16E-01 1.11E-01 1.11E-01 5.47E-01 5.47E-01 7.14E-01

5 PDE4D rs986400 59179929 G A 0.27 3.31E-01 3.31E-01 9.47E-02 9.47E-02 4.50E-01 4.50E-01 6.13E-01

5 PDE4D rs10514888 59188266 T C 0.07 4.54E-01 5.06E-01 8.45E-02 8.45E-02 8.42E-02 9.04E-02 2.02E-02

5 PDE4D rs159625 59197109 C T 0.21 5.24E-01 4.97E-01 4.73E-01 4.73E-01 8.55E-01 8.59E-01 3.72E-01

5 PDE4D rs256348 59204108 A G 0.32 4.94E-01 4.94E-01 7.37E-01 7.37E-01 5.62E-01 5.62E-01 7.13E-01

5 PDE4D rs13168097 59213934 T C 0.04 3.56E-01 3.56E-01 4.09E-02 4.09E-02 2.23E-02 2.23E-02 9.03E-01

5 PDE4D rs7710463 59237228 T C 0.12 5.17E-01 5.17E-01 7.77E-02 6.33E-02 1.76E-01 1.76E-01 6.67E-01

5 rs36066827 59239907 T A 0.12 8.31E-01 8.83E-01 1.40E-01 1.06E-01 1.67E-01 1.67E-01 5.04E-01

5 rs13156502 59241550 T C 0.11 5.74E-01 5.74E-01 5.75E-02 5.73E-02 5.25E-02 5.25E-02 6.72E-01

5 PDE4D rs13362124 59244940 G A 0.54 4.57E-01 4.57E-01 5.41E-01 5.41E-01 2.41E-01 2.41E-01 9.33E-01

5 PDE4D rs988364 59247667 G A 0.39 1.99E-01 1.99E-01 9.42E-01 9.42E-01 8.00E-02 8.00E-02 7.76E-01

5 PDE4D rs1435077 59264373 T C 0.35 1.69E-01 1.69E-01 4.16E-01 4.06E-01 4.94E-01 4.94E-01 7.94E-01

5 PDE4D rs16890369 59265913 T G 0.06 4.16E-01 4.27E-01 1.12E-02 1.12E-02 2.07E-02 2.07E-02 6.36E-01

5 PDE4D rs1529843 59266164 T C 0.45 1.41E-02 7.40E-03 6.65E-01 7.20E-01 3.92E-02 2.22E-02 2.87E-01

5 PDE4D rs7379657 59269104 A G 0.38 2.35E-01 2.35E-01 2.06E-01 1.78E-01 6.15E-01 6.15E-01 8.17E-01

5 PDE4D rs10064439 59269576 C T 0.10 8.71E-01 6.42E-01 8.23E-01 8.23E-01 8.09E-01 8.03E-01 7.00E-03

5 rs10066510 59270315 C A 0.10 9.01E-01 6.90E-01 9.22E-01 9.29E-01 8.76E-01 8.82E-01 9.97E-03

5 PDE4D rs4476687 59275402 T G 0.73 1.26E-01 4.15E-02 6.66E-01 6.66E-01 1.39E-01 6.24E-02 4.21E-02

5 PDE4D rs2916867 59277491 G A 0.73 1.23E-01 4.59E-02 7.37E-01 7.37E-01 1.35E-01 6.72E-02 7.76E-02

5 PDE4D rs4700347 59286263 G A 0.83 2.44E-02 2.44E-02 4.79E-01 3.20E-01 9.88E-03 6.54E-03 3.43E-01

5 PDE4D rs7712937 59290535 T C 0.54 2.03E-02 2.03E-02 9.41E-01 8.46E-01 1.05E-02 1.05E-02 6.16E-01

Supplementary Table 3

Results of asthma meta-analysis for previously reported genes in subjects of European ancestry from genome-wide association studies and positional

cloning studies of asthma

Gene Marker Position P_random P_fixed P_random P_fixed P_random P_fixed

Chromosome

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset +

severe + industrial

asthma)

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

5 PDE4D rs714291 59295129 G A 0.29 4.20E-01 4.20E-01 4.47E-01 3.63E-01 5.95E-01 5.95E-01 8.47E-01

5 PDE4D rs6889660 59308563 C T 0.43 3.89E-02 3.89E-02 5.97E-01 5.88E-01 6.69E-02 6.69E-02 5.06E-01

5 PDE4D rs6881702 59312891 G A 0.72 1.72E-01 1.02E-01 8.26E-01 8.26E-01 2.07E-01 1.40E-01 9.79E-02

5 PDE4D rs1369285 59316368 C T 0.72 1.95E-01 1.29E-01 8.43E-01 8.43E-01 2.02E-01 1.49E-01 1.28E-01

5 PDE4D rs16890418 59324489 G A 0.11 9.86E-01 8.57E-01 2.81E-01 2.81E-01 3.95E-01 2.67E-01 6.51E-02

5 PDE4D rs1583434 59326240 T C 0.94 1.80E-01 1.58E-01 5.85E-01 4.67E-01 1.58E-01 1.30E-01 2.62E-01

5 PDE4D rs984509 59330629 T G 0.43 2.38E-02 2.38E-02 5.06E-01 5.00E-01 7.23E-02 5.29E-02 3.51E-01

5 PDE4D rs1533019 59343570 C T 0.76 5.93E-01 4.63E-01 4.45E-01 2.79E-01 3.00E-01 1.93E-01 5.44E-02

5 PDE4D rs952110 59344919 G A 0.29 3.79E-01 3.79E-01 3.79E-01 3.25E-01 6.31E-01 6.31E-01 7.98E-01

5 PDE4D rs1876671 59347220 T C 0.16 5.44E-02 5.44E-02 3.30E-01 1.58E-01 4.71E-03 4.28E-03 4.42E-01

5 PCDH1 rs10491313 141196494 A G 0.08 1.37E-01 1.37E-01 1.72E-01 1.72E-01 1.64E-02 1.64E-02 7.86E-01

5 PCDH1 rs415388 141196916 G A 0.58 3.38E-02 3.38E-02 9.43E-01 8.92E-01 3.12E-02 3.12E-02 5.36E-01

5 PCDH1 rs17649125 141199812 C T 0.26 1.03E-01 2.74E-02 7.81E-01 7.81E-01 8.36E-02 5.93E-02 2.74E-01

5 PCDH1 rs3815355 141200190 T C 0.25 2.05E-01 2.02E-01 4.49E-01 4.49E-01 1.16E-01 1.16E-01 5.62E-01

5 PCDH1 rs17097801 141202437 C T 0.24 1.26E-01 4.58E-02 7.59E-01 7.59E-01 8.95E-02 8.95E-02 5.02E-01

5 PCDH1 rs17208551 141207154 A G 0.23 6.33E-01 6.92E-01 7.03E-01 7.03E-01 5.82E-01 5.82E-01 4.83E-01

5 PCDH1 rs2974704 141207226 T C 0.91 1.43E-01 1.43E-01 8.59E-01 9.03E-01 4.27E-01 4.43E-01 3.55E-01

5 PCDH1 rs17097812 141209073 C T 0.07 2.06E-01 2.06E-01 7.18E-01 7.18E-01 1.77E-01 1.77E-01 7.01E-01

5 PCDH1 rs11167761 141218527 G A 0.18 9.29E-01 9.29E-01 7.50E-01 7.50E-01 8.67E-01 8.67E-01 7.62E-01

5 PCDH1 rs3797054 141223830 A G 0.35 6.84E-01 6.97E-01 9.37E-01 9.37E-01 6.32E-01 6.43E-01 2.90E-01

5 PCDH1 rs3822357 141224540 C T 0.06 1.09E-01 9.35E-02 8.41E-01 8.41E-01 7.46E-02 7.46E-02 6.54E-01

5 PCDH1 rs10063472 141226830 T C 0.80 4.52E-01 4.52E-01 4.34E-01 4.35E-01 9.11E-01 9.11E-01 8.24E-01

5 PCDH1 rs6888135 141234247 C A 0.49 4.80E-01 4.80E-01 6.94E-01 2.71E-01 9.61E-01 8.76E-01 3.79E-01

5 PCDH1 rs9324859 141259534 G A 0.57 7.19E-01 7.19E-01 9.97E-01 7.38E-01 6.20E-01 6.20E-01 6.65E-01

6 rs16895757 29870157 C T 0.06 2.15E-02 2.15E-02 8.07E-01 8.70E-01 1.20E-01 1.20E-01 4.67E-01

6 rs1633011 29870672 C T 0.28 1.93E-03 1.93E-03 5.11E-01 2.34E-01 1.05E-02 6.38E-03 3.68E-01

6 HLA-G rs11758087 29872422 G A 0.02 5.98E-02 5.98E-02 5.98E-02 5.98E-02 4.12E-01

6 rs1633003 29872738 T C 0.34 7.61E-04 7.61E-04 3.02E-01 3.94E-02 1.59E-04 1.34E-04 4.46E-01

6 HLA-G rs2523414 29873066 T C 0.07 9.89E-01 9.89E-01 5.67E-01 5.67E-01 9.63E-01 9.63E-01 9.71E-01

6 rs9461556 29873431 G T 0.06 8.13E-01 8.13E-01 3.86E-01 3.86E-01 1.43E-01 1.43E-01 7.15E-01

6 rs11752553 29874371 T C 0.04 3.65E-02 3.65E-02 9.29E-01 6.99E-01 3.26E-01 2.98E-01 1.78E-01

6 rs1736991 29874905 G C 0.32 5.68E-03 5.68E-03 4.61E-01 1.06E-01 3.26E-03 3.26E-03 6.44E-01

6 HLA-G rs7741100 29876102 C A 0.05 9.44E-01 9.47E-01 7.38E-01 6.18E-01 7.17E-01 7.19E-01 8.53E-02

6 HLA-G rs1611185 29876323 T C 0.42 2.36E-02 2.36E-02 4.21E-01 7.16E-01 3.59E-01 2.90E-01 2.89E-01

6 rs2017525 29876482 C T 0.06 3.94E-01 3.68E-01 1.68E-02 1.68E-02 1.04E-01 1.06E-01 2.70E-01

6 HLA-G rs1610649 29876896 T C 0.39 7.42E-02 7.42E-02 8.78E-01 9.88E-01 1.21E-01 1.21E-01 6.51E-01

6 rs1610657 29879045 T C 0.34 1.42E-03 1.42E-03 3.56E-01 4.92E-02 5.14E-04 2.99E-04 3.95E-01

6 rs1611190 29879277 A T 0.34 8.98E-01 8.98E-01

6 HLA-G rs1632988 29880374 G A 0.28 4.45E-04 4.45E-04 3.92E-01 1.80E-01 1.90E-02 1.07E-02 2.85E-01

6 rs1632983 29881488 C T 0.32 5.46E-03 5.46E-03 4.48E-01 1.17E-01 3.40E-03 3.40E-03 6.65E-01

6 rs17178826 29881516 A G 0.03 5.96E-02 5.96E-02 5.96E-02 5.96E-02 4.34E-01

6 HLA-G rs9258447 29881831 C T 0.09 6.80E-01 5.97E-01 4.33E-02 4.33E-02 2.47E-01 2.36E-01 2.07E-01

6 rs11757182 29883504 A C 0.03 5.66E-02 5.66E-02 5.66E-02 5.66E-02 4.37E-01

6 rs2523409 29883641 A G 0.37 2.01E-01 2.01E-01 4.40E-01 7.56E-01 6.35E-01 5.36E-01 2.61E-01

6 HLA-G rs1736971 29884301 G T 0.29 1.12E-03 1.12E-03 4.66E-01 2.15E-01 2.61E-02 1.74E-02 3.17E-01

6 rs1632971 29885890 T C 0.85 1.28E-01 1.28E-01 2.16E-01 2.36E-01 4.05E-02 4.01E-02 4.53E-01

6 rs1610699 29886966 T G 0.31 1.55E-03 6.00E-04 4.92E-01 1.77E-01 8.55E-03 1.23E-03 1.23E-01

6 rs9258468 29889307 G A 0.02 9.48E-02 9.48E-02 9.48E-02 9.48E-02

6 rs1610707 29890027 C A 0.35 1.94E-03 1.94E-03 8.13E-01 9.53E-01 1.16E-01 5.39E-02 1.97E-01

6 rs11753629 29890310 G A 0.13 8.92E-01 8.92E-01 4.35E-01 4.35E-01 8.68E-01 8.68E-01 7.43E-01

6 HLA-G rs11753654 29890600 C T 0.09 7.68E-01 8.23E-01 2.12E-01 2.12E-01 7.35E-01 8.43E-01 1.64E-01

6 rs1736956 29890669 G A 0.41 2.47E-02 2.47E-02 9.75E-01 7.44E-01 7.85E-02 7.85E-02 8.68E-01

6 rs1077432 29890847 T C 0.28 3.07E-03 3.07E-03 4.67E-01 1.95E-01 6.52E-03 6.42E-03 4.64E-01

6 HLA-G rs1619379 29893214 C T 0.40 3.92E-03 3.92E-03 3.85E-01 8.93E-02 1.89E-02 1.21E-02 2.15E-01

6 rs17185440 29894036 G T 0.06 3.29E-02 3.29E-02 6.69E-01 8.69E-01 1.74E-01 1.80E-01 3.98E-01

6 rs1633053 29894466 A G 0.49 1.92E-02 1.92E-02 7.41E-01 3.79E-01 1.41E-02 1.41E-02 4.96E-01

6 rs2743931 29895051 C T 0.85 1.17E-01 1.17E-01 2.07E-01 2.36E-01 3.68E-02 3.68E-02 4.75E-01

6 rs1155143 29896371 A G 0.29 3.62E-03 3.62E-03 5.39E-01 1.49E-01 1.53E-02 4.41E-03 2.11E-01

6 rs1610675 29896585 C T 0.30 5.71E-03 5.71E-03 6.08E-01 2.93E-01 2.35E-02 1.31E-02 3.20E-01

6 rs1611149 29897978 C T 0.49 1.41E-02 1.41E-02 7.83E-01 4.11E-01 5.23E-02 5.00E-02 4.30E-01

Supplementary Table 3

Results of asthma meta-analysis for previously reported genes in subjects of European ancestry from genome-wide association studies and positional

cloning studies of asthma

Gene Marker Position P_random P_fixed P_random P_fixed P_random P_fixed

Chromosome

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset +

severe + industrial

asthma)

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

6 rs1632949 29901703 T C 0.36 5.59E-03 5.59E-03 4.68E-01 2.14E-01 3.69E-03 3.69E-03 6.81E-01

6 HLA-G rs1632948 29902028 T C 0.49 1.77E-02 1.77E-02 7.39E-01 3.58E-01 5.07E-02 5.07E-02 4.83E-01

6 rs1631950 29903400 G A 0.46 5.09E-02 5.09E-02 9.45E-01 6.40E-01 7.02E-02 6.43E-02 4.29E-01

6 rs1707 29906589 C T 0.87 2.56E-01 2.56E-01 8.30E-01 8.35E-01 4.55E-01 4.55E-01 5.89E-01

6 rs1611139 29907095 G T 0.30 5.81E-03 5.81E-03 6.42E-01 2.88E-01 2.42E-02 1.17E-02 2.83E-01

6 rs11753296 29909089 G A 0.14 8.53E-01 8.53E-01 4.66E-01 4.66E-01 8.70E-01 8.70E-01 8.38E-01

6 rs2743944 29909937 T C 0.30 7.45E-01 8.38E-01 7.40E-01 8.04E-01 8.42E-01 8.40E-01 1.73E-01

6 rs17179115 29910907 A T 0.13 6.11E-01 6.10E-01 2.55E-01 2.55E-01 9.77E-01 9.77E-01 6.13E-01

6 HLA-G rs2523790 29911629 T G 0.29 9.46E-01 9.96E-01 8.44E-01 8.86E-01 9.37E-01 9.27E-01 4.22E-01

6 rs16896052 29912155 A G 0.06 2.66E-02 2.66E-02 4.70E-01 6.71E-01 5.72E-02 5.72E-02 7.19E-01

6 rs2394178 29912824 G A 0.24 2.64E-01 1.54E-01 9.06E-01 9.24E-01 3.96E-01 3.31E-01 2.57E-01

6 HLA-G rs2394180 29913178 T C 0.13 8.96E-01 8.96E-01 4.51E-01 4.51E-01 7.30E-01 7.30E-01 9.49E-01

6 HLA-G rs9258525 29914320 T C 0.05 9.71E-01 8.23E-01 6.78E-01 5.36E-01 7.81E-01 7.89E-01 3.93E-02

6 rs2523779 29914601 C T 0.10 2.67E-01 1.87E-01 5.62E-01 5.62E-01 2.45E-01 2.37E-01 4.39E-01

6 rs2735009 29915832 G A 0.24 3.96E-01 3.09E-01 7.53E-01 7.58E-01 5.69E-01 5.33E-01 3.28E-01

6 HLA-G rs2743937 29915902 T C 0.23 5.51E-01 5.24E-01 8.17E-01 8.28E-01 7.91E-01 7.91E-01 3.78E-01

6 HLA-G rs2735007 29916178 G A 0.23 6.57E-01 6.83E-01 8.76E-01 9.20E-01 9.44E-01 9.68E-01 3.39E-01

6 HLA-G rs2735003 29916613 T G 0.23 5.44E-01 5.12E-01 7.45E-01 7.61E-01 8.28E-01 8.27E-01 3.63E-01

6 rs9258537 29916840 G A 0.24 3.41E-01 2.47E-01 7.21E-01 7.06E-01 5.48E-01 5.00E-01 2.77E-01

6 HLA-G rs2734999 29916896 C T 0.10 3.90E-01 3.51E-01 5.92E-01 5.92E-01 5.00E-01 5.00E-01 5.63E-01

6 rs2523777 29917066 C T 0.24 3.69E-01 3.12E-01 7.81E-01 7.90E-01 5.40E-01 5.17E-01 3.65E-01

6 HLA-G rs2523776 29917173 T G 0.10 3.77E-01 3.39E-01 5.73E-01 5.73E-01 4.99E-01 4.99E-01 5.55E-01

6 HLA-G rs1611133 29917361 C T 0.23 1.98E-03 1.98E-03 7.96E-01 4.08E-01 5.30E-02 1.99E-02 1.04E-01

6 HLA-G rs4607472 29918522 A G 0.10 2.38E-01 2.37E-01 3.57E-01 3.57E-01 1.58E-01 1.58E-01 5.07E-01

6 rs2523769 29919001 A C 0.29 9.31E-01 8.28E-01 8.62E-01 9.06E-01 8.41E-01 8.18E-01 3.73E-01

6 HLA-G rs16896081 29919688 C T 0.06 3.08E-02 3.08E-02 5.66E-01 8.81E-01 7.90E-02 7.90E-02 6.43E-01

6 HLA-G rs2734994 29920009 C T 0.10 4.82E-01 4.63E-01 5.17E-01 5.17E-01 6.14E-01 6.14E-01 4.79E-01

6 rs5013310 29920383 C T 0.16 4.65E-01 4.43E-01 5.06E-01 5.06E-01 4.90E-01 4.72E-01 4.14E-01

6 rs2523767 29920786 A G 0.26 6.26E-01 5.82E-01 7.78E-01 7.96E-01 7.15E-01 6.81E-01 1.23E-01

6 HLA-G rs2517879 29920953 G A 0.25 8.83E-01 9.74E-01 8.60E-01 8.89E-01 9.48E-01 9.46E-01 7.64E-02

6 rs9258555 29920995 G C 0.10 3.23E-01 2.55E-01 5.79E-01 5.79E-01 3.34E-01 3.25E-01 4.41E-01

6 rs3873260 29921661 A G 0.26 6.33E-01 6.00E-01 7.69E-01 7.72E-01 7.42E-01 7.22E-01 6.14E-02

6 HLA-G rs9258557 29921921 C T 0.10 3.00E-01 2.04E-01 4.16E-01 4.16E-01 2.81E-01 2.51E-01 3.60E-01

6 rs3115629 29923692 C T 0.85 7.66E-02 7.66E-02 4.44E-01 5.54E-01 1.94E-02 1.94E-02 6.37E-01

6 HLA-G rs2394185 29924350 T G 0.07 5.49E-01 5.55E-01 2.15E-02 2.15E-02 8.31E-02 8.06E-02 4.22E-01

6 HLA-G rs2734986 29926547 T C 0.15 9.81E-03 9.81E-03 3.33E-01 1.18E-01 6.92E-02 3.04E-02 1.11E-01

6 HLA-G rs2734985 29926641 T C 0.22 1.05E-01 1.05E-01 3.08E-01 7.43E-02 1.69E-01 1.46E-01 9.14E-02

6 rs2247504 29927056 G A 0.41 9.48E-02 5.49E-02 6.88E-01 3.77E-01 1.22E-01 5.51E-02 4.83E-02

6 rs2523759 29927072 A G 0.21 1.41E-01 1.41E-01 7.10E-01 2.81E-01 1.09E-01 6.20E-02 1.40E-01

6 rs2508053 29927888 C T 0.42 1.90E-01 1.38E-01 9.84E-01 9.01E-01 3.18E-01 3.46E-01 4.73E-02

6 HLA-G rs2508050 29928026 T C 0.09 6.97E-01 5.60E-01 5.43E-01 4.94E-01 3.88E-01 3.53E-01 8.96E-02

6 HLA-G rs5013093 29928565 C T 0.22 6.88E-02 6.88E-02 4.01E-01 9.92E-02 1.58E-01 1.14E-01 5.06E-02

6 rs2734984 29928810 T C 0.21 1.45E-01 1.45E-01 4.36E-01 1.05E-01 4.93E-02 2.92E-02 1.92E-01

6 HLA-G rs2517861 29929961 C T 0.23 2.95E-02 2.95E-02 4.46E-01 1.07E-01 8.61E-02 5.39E-02 6.01E-02

6 rs2517855 29931143 G A 0.14 2.02E-02 2.02E-02 3.79E-01 1.42E-01 3.14E-02 1.28E-02 1.98E-01

6 rs2517854 29931275 G C 0.42 2.30E-02 8.17E-03 6.99E-01 4.84E-01 4.57E-02 1.45E-02 4.64E-02

6 rs2844826 29931298 A G 0.42 2.29E-02 8.04E-03 6.87E-01 4.65E-01 4.68E-02 1.44E-02 3.96E-02

6 rs2508049 29931862 A G 0.15 3.77E-02 3.77E-02 3.27E-01 8.34E-02 3.29E-02 1.42E-02 1.65E-01

6 rs1611684 29933825 G A 0.42 1.47E-02 5.51E-03 6.89E-01 4.47E-01 5.16E-02 1.81E-02 4.06E-02

6 rs9258725 29934193 T C 0.27 1.83E-01 9.79E-02 7.38E-01 7.01E-01 3.33E-01 2.61E-01 8.91E-02

6 rs10428803 29935283 T C 0.06 1.15E-01 1.15E-01 5.26E-01 5.26E-01 2.34E-01 2.34E-01 6.81E-01

6 rs9258738 29935369 A C 0.27 2.37E-01 1.71E-01 8.15E-01 8.15E-01 3.52E-01 2.93E-01 1.42E-01

6 rs17185692 29936295 G A 0.07 2.05E-01 2.05E-01 7.88E-01 4.39E-01 3.56E-01 3.43E-01 4.02E-01

6 rs9295822 29936859 C T 0.05 6.14E-01 6.14E-01 8.41E-01 8.41E-01 7.36E-01 7.36E-01 7.52E-01

6 HLA-G rs1611710 29936895 C T 0.42 8.41E-03 4.65E-03 6.88E-01 4.59E-01 6.39E-02 4.11E-02 5.60E-02

6 HLA-G rs3094170 29937244 T C 0.85 1.88E-01 1.88E-01 2.56E-01 3.10E-01 9.50E-02 9.81E-02 3.87E-01

6 HLA-G rs2517830 29937545 T G 0.08 6.08E-01 6.08E-01 4.68E-01 4.99E-01 8.37E-01 8.37E-01 6.87E-01

6 HLA-G rs3094169 29937965 T C 0.80 5.18E-01 5.47E-01 2.72E-01 3.09E-01 2.33E-01 3.03E-01 4.55E-02

6 HLA-G rs7760172 29938053 T C 0.04 1.45E-01 1.45E-01 1.17E-01 7.61E-02 7.67E-02 7.31E-02 3.76E-01

6 rs9258766 29938390 G A 0.27 2.23E-01 1.53E-01 7.67E-01 7.44E-01 3.67E-01 3.03E-01 1.23E-01

6 HLA-G rs9258771 29938631 A G 0.27 3.61E-01 3.12E-01 8.55E-01 8.51E-01 5.68E-01 5.51E-01 1.53E-01

6 rs1611738 29939685 C A 0.14 3.83E-02 3.83E-02 3.30E-01 9.04E-02 3.66E-02 1.64E-02 1.61E-01

Supplementary Table 3

Results of asthma meta-analysis for previously reported genes in subjects of European ancestry from genome-wide association studies and positional

cloning studies of asthma

Gene Marker Position P_random P_fixed P_random P_fixed P_random P_fixed

Chromosome

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset +

severe + industrial

asthma)

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

6 rs2524035 29940311 A G 0.81 1.91E-02 1.91E-02 2.92E-01 4.74E-01 1.83E-02 1.42E-02 2.48E-01

6 rs7760545 29941451 C A 0.01 8.34E-01 8.34E-01 8.34E-01 8.34E-01

6 HLA-G rs3094165 29941520 A G 0.69 8.97E-01 8.41E-01 2.40E-01 2.26E-01 5.18E-01 6.01E-01 2.48E-01

6 rs2734973 29941927 C T 0.13 8.40E-01 6.87E-01 7.06E-01 6.84E-01 4.70E-01 4.00E-01 2.21E-01

6 HLA-G rs2517826 29942020 G A 0.21 1.25E-03 1.25E-03 1.94E-01 1.21E-01 1.47E-02 1.04E-02 3.23E-01

6 HLA-G rs11967812 29943611 T C 0.05 5.53E-01 5.53E-01 6.64E-01 6.74E-01 6.06E-01 6.06E-01 7.59E-01

6 HLA-G rs9258866 29944503 C A 0.05 8.52E-01 9.77E-01 8.40E-01 7.78E-01 7.24E-01 7.72E-01 5.10E-02

6 HLA-G rs3132718 29944556 T C 0.64 1.87E-01 1.20E-01 2.14E-01 2.69E-01 1.11E-01 1.14E-01 8.07E-02

6 HLA-G rs9258883 29945167 C T 0.75 5.02E-02 2.50E-02 3.44E-01 5.34E-01 4.81E-02 3.63E-02 9.12E-02

6 rs9258894 29945443 A C 0.63 1.48E-01 4.73E-02 4.25E-01 5.05E-01 1.01E-01 4.73E-02 5.38E-02

6 rs9258895 29945461 C G 0.06 6.53E-01 7.79E-01 9.71E-01 9.45E-01 6.40E-01 6.79E-01 6.11E-02

6 rs3094654 29947795 T C 0.63 1.31E-01 7.51E-02 2.12E-01 2.69E-01 5.83E-02 3.86E-02 1.31E-01

6 rs9258966 29948361 C T 0.64 1.85E-01 1.18E-01 2.05E-01 2.58E-01 1.08E-01 1.12E-01 7.68E-02

6 HLA-G rs3132714 29948627 T C 0.64 1.79E-01 1.14E-01 2.02E-01 2.52E-01 1.01E-01 1.03E-01 7.82E-02

6 rs3115619 29950858 A G 0.63 6.10E-01 6.10E-01 6.88E-01 8.87E-01 8.26E-01 9.41E-01 2.61E-01

6 HLA-G rs2523809 29957598 G T 0.13 8.44E-01 7.40E-01 6.86E-01 6.59E-01 5.64E-01 5.60E-01 2.77E-01

6 rs2734959 29957666 G C 0.50 5.26E-01 6.16E-01 6.11E-01 7.90E-01 5.99E-01 7.14E-01 2.42E-01

7 rs10253465 34656816 T C 0.35 8.09E-01 8.09E-01 3.16E-01 2.28E-01 2.31E-01 2.31E-01 8.47E-01

7 GPR154 rs1006393 34657650 T C 0.48 8.84E-01 8.84E-01 2.34E-01 2.34E-01 3.08E-01 3.08E-01 9.66E-01

7 GPR154 rs376825 34658205 A C 0.45 6.95E-01 6.95E-01 3.20E-01 3.20E-01 5.41E-01 5.41E-01 9.85E-01

7 GPR154 rs1458550 34660751 A G 0.63 7.53E-01 7.53E-01 3.43E-01 3.36E-01 4.27E-01 4.27E-01 9.23E-01

7 GPR154 rs1023556 34663070 C T 0.24 8.90E-01 8.90E-01 4.59E-01 4.59E-01 9.02E-01 9.02E-01 9.93E-01

7 GPR154 rs2530545 34663665 C T 0.15 8.11E-01 8.11E-01 6.34E-01 6.34E-01 6.05E-01 6.05E-01 9.86E-01

7 GPR154 rs887020 34664507 A G 0.55 3.50E-01 3.50E-01 6.33E-02 6.33E-02 1.63E-02 1.63E-02 8.89E-01

7 GPR154 rs2530548 34664735 A G 0.41 7.26E-01 7.26E-01 6.25E-01 6.25E-01 1.54E-01 1.54E-01 5.95E-01

7 GPR154 rs2530552 34664901 A G 0.37 3.23E-01 3.23E-01 9.58E-01 9.58E-01 9.02E-02 9.02E-02 6.09E-01

7 GPR154 rs11761197 34666914 A G 0.10 3.80E-01 3.80E-01 4.40E-01 4.05E-01 9.29E-01 9.29E-01 8.71E-01

7 GPR154 rs1379928 34667814 A G 0.21 2.70E-01 2.70E-01 6.74E-01 5.12E-01 1.92E-01 1.92E-01 6.79E-01

7 GPR154 rs411323 34668233 T C 0.72 6.49E-01 6.49E-01 4.79E-01 4.79E-01 1.06E-01 1.06E-01 6.41E-01

7 rs425990 34668324 T C 0.49 7.13E-01 7.13E-01 3.15E-01 3.15E-01 7.19E-02 7.19E-02 5.14E-01

7 GPR154 rs2530561 34668981 C T 0.08 7.66E-01 7.66E-01 4.03E-02 2.46E-02 1.87E-01 1.87E-01 7.79E-01

7 GPR154 rs2609224 34672931 A C 0.22 1.69E-01 1.69E-01 9.74E-01 9.12E-01 1.63E-01 1.63E-01 7.44E-01

7 GPR154 rs2609220 34676579 C T 0.21 1.60E-01 1.60E-01 7.31E-01 7.62E-01 2.12E-01 2.12E-01 6.76E-01

7 GPR154 rs2530571 34677105 G A 0.46 5.39E-01 5.39E-01 5.28E-01 5.28E-01 1.56E-01 1.56E-01 7.81E-01

7 GPR154 rs10486653 34678188 C T 0.26 1.04E-01 1.04E-01 2.11E-01 2.11E-01 1.26E-03 1.26E-03 5.28E-01

7 GPR154 rs1458536 34680059 C T 0.11 3.81E-01 3.81E-01 7.73E-01 6.27E-01 1.14E-01 1.14E-01 5.16E-01

7 GPR154 rs2609215 34682292 T C 0.09 9.47E-01 9.47E-01 2.74E-01 2.74E-01 1.95E-01 1.95E-01 8.26E-01

7 GPR154 rs10255979 34685030 T C 0.21 5.79E-01 5.74E-01 6.59E-01 6.59E-01 5.60E-01 6.02E-01 2.94E-01

7 GPR154 rs2531840 34685048 G A 0.40 7.85E-01 7.85E-01 4.20E-01 4.20E-01 1.50E-01 1.50E-01 5.16E-01

7 GPR154 rs2531841 34686074 T C 0.48 9.78E-01 9.78E-01 2.69E-01 2.69E-01 1.34E-01 1.13E-01 4.07E-01

7 GPR154 rs10274146 34686172 A G 0.24 1.69E-01 1.69E-01 6.85E-01 6.85E-01 8.83E-03 8.83E-03 6.40E-01

7 GPR154 rs1419837 34692064 C T 0.10 4.09E-01 4.09E-01 3.49E-01 3.19E-01 8.33E-01 8.33E-01 8.48E-01

7 rs323928 34700776 C T 0.37 5.97E-01 5.97E-01 5.20E-01 5.20E-01 2.36E-01 2.00E-01 3.38E-01

7AAA1 rs323907 34702727 C T 0.10 5.74E-01 5.74E-01 5.43E-01 4.87E-01 1.54E-01 1.54E-01 5.92E-01

7AAA1 rs10081183 34706738 C A 0.31 5.72E-01 5.72E-01 5.36E-01 4.38E-01 2.99E-01 2.62E-01 2.14E-01

7AAA1 rs1345267 34714584 A G 0.37 9.56E-01 9.56E-01 5.40E-01 4.01E-01 4.77E-01 4.52E-01 3.55E-01

7AAA1 rs1419791 34722086 G A 0.43 7.26E-01 7.26E-01 5.50E-01 4.76E-01 4.06E-01 4.06E-01 5.38E-01

7AAA1 rs324374 34723121 T C 0.43 7.75E-01 7.75E-01 5.68E-01 4.81E-01 4.69E-01 4.69E-01 4.92E-01

7AAA1 rs11773493 34730130 C T 0.15 7.10E-01 7.10E-01 6.51E-01 6.02E-01 2.78E-01 2.78E-01 7.98E-01

7AAA1 rs11975122 34731584 T C 0.17 9.84E-01 9.84E-01 2.06E-01 2.06E-01 7.05E-01 7.05E-01 8.40E-01

7AAA1 rs324383 34737020 G A 0.19 9.12E-01 9.12E-01 2.35E-01 1.35E-01 2.82E-01 2.82E-01 7.19E-01

7AAA1 rs10241616 34740053 G T 0.17 9.44E-01 9.44E-01 1.93E-01 1.93E-01 7.25E-01 7.25E-01 8.33E-01

7AAA1 rs324389 34744239 C T 0.36 8.90E-01 8.90E-01 2.38E-01 2.38E-01 7.38E-01 7.38E-01 7.50E-01

7AAA1 rs10270663 34752923 G T 0.36 9.23E-01 9.23E-01 1.71E-01 1.71E-01 6.45E-01 6.45E-01 7.40E-01

7AAA1 rs324396 34756648 T C 0.68 7.38E-01 7.38E-01 4.30E-01 4.48E-01 1.47E-01 1.21E-01 3.23E-01

7AAA1 rs10486656 34767285 C T 0.11 5.80E-01 5.94E-01 1.76E-01 1.76E-01 5.99E-01 5.99E-01 4.99E-01

7AAA1 rs324957 34767897 A G 0.55 7.46E-01 7.46E-01 8.25E-01 7.07E-01 9.87E-01 9.87E-01 7.26E-01

7AAA1 rs10267134 34769628 A G 0.18 9.57E-01 9.57E-01 6.99E-01 6.99E-01 9.06E-01 8.70E-01 3.54E-01

7AAA1 rs10278663 34774996 G A 0.18 9.50E-01 9.50E-01 7.00E-01 7.00E-01 8.72E-01 8.55E-01 4.15E-01

7 GPR154 rs1419779 34779833 A G 0.33 8.27E-01 8.27E-01 6.24E-01 6.24E-01 6.14E-01 6.14E-01 8.59E-01

7 GPR154 rs324978 34780857 A G 0.27 8.17E-01 8.17E-01 2.92E-01 2.92E-01 6.41E-01 6.41E-01 8.85E-01

Supplementary Table 3

Results of asthma meta-analysis for previously reported genes in subjects of European ancestry from genome-wide association studies and positional

cloning studies of asthma

Gene Marker Position P_random P_fixed P_random P_fixed P_random P_fixed

Chromosome

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset +

severe + industrial

asthma)

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

7 GPR154 rs324987 34787953 T C 0.46 7.69E-01 7.69E-01 5.20E-01 3.25E-01 7.45E-01 7.34E-01 4.01E-01

7 rs17170001 34814552 G A 0.11 7.34E-01 7.06E-01 6.59E-01 5.84E-01 8.24E-01 8.20E-01 2.60E-01

7 GPR154 rs17199853 34830391 C T 0.09 7.32E-01 6.88E-01 8.62E-01 8.85E-01 7.21E-01 7.20E-01 3.81E-01

7 GPR154 rs17199888 34830864 G A 0.19 6.41E-01 6.41E-01 8.42E-01 8.42E-01 6.13E-01 6.13E-01 5.60E-01

7 GPR154 rs1860370 34830963 A G 0.10 6.77E-01 6.48E-01 9.94E-01 9.69E-01 5.31E-01 5.18E-01 3.51E-01

7 GPR154 rs1419868 34834082 T C 0.56 6.89E-01 6.89E-01 6.50E-01 4.65E-01 6.33E-01 6.33E-01 5.21E-01

7 GPR154 rs17170012 34834437 A G 0.09 5.20E-01 6.07E-01 8.64E-01 8.64E-01 6.25E-01 6.25E-01 6.71E-01

7 GPR154 rs12111597 34836526 G A 0.22 3.96E-01 3.96E-01 9.60E-01 9.60E-01 2.57E-01 2.57E-01 6.89E-01

7 GPR154 rs17789834 34837853 A G 0.17 1.96E-01 1.96E-01 4.69E-01 4.69E-01 6.21E-02 6.21E-02 9.91E-01

7 GPR154 rs6947841 34840270 C T 0.21 6.75E-01 5.66E-01 1.92E-01 6.42E-02 2.95E-01 1.31E-01 2.27E-02

7 GPR154 rs764269 34842254 A G 0.22 5.88E-01 5.88E-01 9.23E-01 9.23E-01 4.28E-01 4.28E-01 9.48E-01

7 GPR154 rs10249085 34842539 C T 0.39 6.11E-01 5.46E-01 2.69E-01 2.34E-01 9.81E-01 9.36E-01 2.88E-02

7 GPR154 rs10246825 34843559 T C 0.31 4.10E-01 4.10E-01 1.80E-01 1.80E-01 9.55E-01 9.55E-01 6.66E-01

7 GPR154 rs17200455 34844521 A G 0.21 2.16E-01 1.77E-01 4.81E-02 7.47E-03 9.96E-01 9.95E-01 8.40E-02

7 GPR154 rs10250709 34853350 G A 0.35 2.59E-01 2.59E-01 4.59E-01 4.59E-01 4.52E-01 4.52E-01 7.93E-01

7 GPR154 rs10275028 34855747 T C 0.35 2.84E-01 2.84E-01 4.98E-01 4.98E-01 4.55E-01 4.55E-01 8.02E-01

7 GPR154 rs10235648 34865760 T C 0.32 2.61E-01 2.61E-01 4.03E-01 4.03E-01 3.96E-01 3.96E-01 7.81E-01

7 GPR154 rs10238983 34866098 T C 0.24 2.89E-01 2.77E-01 7.90E-02 7.90E-02 6.17E-01 6.15E-01 4.61E-01

7 rs11979570 34868491 A C 0.32 5.47E-01 5.56E-01 4.57E-01 4.57E-01 9.22E-01 9.22E-01 6.54E-01

7AAA1 rs1833090 34874311 A C 0.73 3.02E-01 3.02E-01 9.85E-01 9.85E-01 1.95E-01 1.95E-01 5.65E-01

7 GPR154 rs10271686 34886316 A G 0.31 3.32E-01 3.32E-01 2.43E-01 2.43E-01 4.54E-01 4.54E-01 8.51E-01

7 GPR154 rs11771425 34886600 A G 0.08 9.87E-01 9.87E-01 5.06E-01 5.06E-01 6.81E-01 6.81E-01 7.01E-01

7 GPR154 rs7804942 34890862 A G 0.46 8.43E-02 8.43E-02 6.57E-01 7.72E-01 5.35E-02 5.35E-02 7.55E-01

7 GPR154 rs7808534 34896755 C T 0.46 1.89E-01 1.89E-01 7.62E-01 8.66E-01 7.04E-02 7.04E-02 7.48E-01

7 GPR154 rs7808655 34896802 C T 0.21 1.91E-01 1.67E-01 2.74E-02 2.74E-02 6.26E-01 6.01E-01 3.13E-01

7 rs11767895 34902201 A G 0.07 4.10E-01 4.10E-01 5.16E-01 5.16E-01 8.97E-01 8.97E-01 6.66E-01

7 GPR154 rs17791395 34905808 T G 0.44 2.74E-02 2.74E-02 8.71E-01 6.96E-01 1.12E-02 1.12E-02 5.83E-01

7 GPR154 rs1859409 34906409 T C 0.66 3.83E-01 3.83E-01 4.75E-01 4.75E-01 9.50E-02 9.50E-02 8.72E-01

7 GPR154 rs10252228 34906564 A G 0.41 2.33E-01 1.53E-01 9.05E-01 6.46E-01 2.17E-01 1.42E-01 8.77E-02

7 GPR154 rs4723388 34909345 T C 0.17 6.99E-01 6.80E-01 7.08E-01 7.08E-01 7.00E-01 7.00E-01 4.80E-01

7 rs17791600 34911303 G A 0.18 7.33E-01 7.16E-01 8.32E-01 8.32E-01 7.62E-01 7.62E-01 7.32E-01

7 GPR154 rs1362134 34919485 T C 0.58 6.70E-01 7.11E-01 4.87E-01 4.87E-01 3.71E-01 3.37E-01 1.90E-01

7 rs987479 34922949 A G 0.17 9.31E-01 9.23E-01 6.83E-01 6.83E-01 8.83E-01 8.83E-01 6.00E-01

7 GPR154 rs1186717 34937434 G T 0.32 7.50E-01 3.94E-01 5.02E-01 5.02E-01 7.43E-01 6.32E-01 8.70E-02

7 rs1649210 34942879 G T 0.33 8.23E-01 4.77E-01 4.65E-01 4.65E-01 8.82E-01 7.99E-01 7.79E-02

7 rs13234119 34952607 G A 0.07 5.20E-01 5.20E-01 4.61E-01 4.61E-01 9.15E-01 9.15E-01 9.24E-01

7 GPR154 rs1649220 34953122 G A 0.49 9.10E-01 6.78E-01 3.15E-01 3.15E-01 8.85E-01 9.19E-01 1.83E-01

7 rs1649228 34959160 A G 0.49 5.57E-01 5.58E-01 3.30E-01 3.30E-01 4.94E-01 4.43E-01 2.11E-01

7 GPR154 rs1637673 34964375 A G 0.31 6.93E-01 2.86E-01 3.77E-01 3.77E-01 7.50E-01 6.82E-01 3.85E-02

7 rs1637682 34976279 T C 0.20 7.63E-01 7.63E-01 8.43E-01 8.43E-01 7.67E-01 7.67E-01 8.80E-01

7 GPR154 rs4236340 34976719 T G 0.18 5.09E-01 4.85E-01 7.02E-01 7.02E-01 5.12E-01 5.12E-01 6.40E-01

7 rs10267957 34980824 A C 0.28 7.98E-01 5.00E-01 3.26E-01 3.26E-01 8.81E-01 8.71E-01 6.42E-02

7 GPR154 rs328902 34987368 C T 0.31 5.00E-01 1.68E-01 2.56E-01 2.56E-01 5.42E-01 3.96E-01 3.34E-02

7 GPR154 rs328906 34990440 C A 0.20 7.63E-01 7.39E-01 8.34E-01 8.34E-01 5.77E-01 5.77E-01 6.98E-01

7 GPR154 rs2023328 34998155 G A 0.18 6.05E-01 5.61E-01 8.97E-01 8.97E-01 5.56E-01 5.56E-01 5.05E-01

7 rs328937 35015656 T C 0.31 8.31E-01 5.88E-01 3.24E-01 3.24E-01 9.29E-01 9.65E-01 3.13E-02

7 GPR154 rs329240 35024965 C T 0.31 4.82E-01 1.56E-01 2.59E-01 2.59E-01 5.86E-01 4.86E-01 5.05E-02

7 GPR154 rs329252 35031638 G T 0.49 6.87E-01 4.21E-01 2.77E-01 2.77E-01 8.82E-01 8.00E-01 1.37E-01

7 GPR154 rs329263 35037145 T C 0.49 9.78E-01 7.14E-01 2.47E-01 2.47E-01 7.11E-01 7.08E-01 6.35E-02

7 rs329281 35049818 T G 0.10 1.26E-01 1.26E-01 9.03E-01 9.03E-01 1.47E-01 1.47E-01 7.75E-01

7 GPR154 rs329580 35058400 T C 0.44 5.03E-01 3.34E-01 8.00E-01 8.00E-01 9.22E-01 9.22E-01 4.85E-01

12 IRAK3 rs1436849 64861385 C T 0.41 2.11E-01 2.11E-01 4.02E-01 1.96E-01 9.01E-01 7.61E-01 3.26E-02

12 IRAK3 rs2701653 64868152 C T 0.07 1.42E-01 1.42E-01 8.21E-01 7.89E-01 9.42E-01 9.10E-01 4.61E-02

12 IRAK3 rs1732877 64885411 T C 0.36 7.13E-01 7.13E-01 4.39E-01 4.99E-01 9.25E-01 7.64E-01 1.10E-01

12 IRAK3 rs1152888 64891495 A G 0.94 3.35E-01 3.35E-01 6.51E-01 3.37E-01 5.57E-01 4.07E-01 5.38E-02

12 IRAK3 rs1821777 64892495 C T 0.29 6.27E-01 5.78E-01 2.26E-01 1.70E-01 9.77E-01 9.11E-01 3.48E-02

12 IRAK3 rs1623665 64904449 T G 0.65 7.12E-01 7.12E-01 4.00E-01 4.08E-01 8.94E-01 7.84E-01 2.11E-01

12 IRAK3 rs17826057 64919431 G A 0.05 3.96E-01 3.96E-01 1.36E-01 1.36E-01 7.21E-02 7.21E-02 8.42E-01

12 IRAK3 rs1152912 64920175 A G 0.58 5.46E-01 4.18E-01 6.20E-01 7.07E-01 9.00E-01 7.27E-01 4.95E-02

12 IRAK3 rs1152918 64922569 T C 0.95 5.75E-01 5.75E-01 5.55E-01 5.07E-01 8.66E-01 9.42E-01 1.22E-01

12 IRAK3 rs3782348 64923752 C T 0.04 5.75E-01 5.75E-01 5.55E-01 5.07E-01 8.66E-01 9.42E-01 1.22E-01

Supplementary Table 3

Results of asthma meta-analysis for previously reported genes in subjects of European ancestry from genome-wide association studies and positional

cloning studies of asthma

Gene Marker Position P_random P_fixed P_random P_fixed P_random P_fixed

Chromosome

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset +

severe + industrial

asthma)

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

12 rs11465990 64928743 G C 0.08 9.71E-01 9.71E-01 6.22E-01 6.22E-01 5.72E-01 5.72E-01 9.70E-01

12 IRAK3 rs7972963 64932466 G T 0.09 2.99E-01 2.81E-01 2.82E-01 2.82E-01 5.82E-01 5.89E-01 1.80E-01

12 IRAK3 rs12307857 64942106 T C 0.08 8.12E-01 8.12E-01 6.61E-01 3.58E-01 3.20E-01 2.47E-01 2.67E-01

12 rs2088169 64946270 T C 0.53 1.36E-01 1.36E-01 2.96E-01 2.96E-01 9.94E-01 9.94E-01 8.25E-01

12 IRAK3 rs289067 64948547 T C 0.75 4.74E-01 4.74E-01 8.95E-01 8.95E-01 8.26E-01 8.26E-01 9.72E-01

13 PHF11 rs4340215 48984245 A G 0.54 9.76E-01 8.59E-01 5.74E-01 4.71E-01 8.92E-01 8.74E-01 1.34E-02

13 PHF11 rs7998996 48984254 T G 0.03 5.27E-02 5.27E-02 5.27E-02 5.27E-02

13 rs4430650 48984267 G T 0.53 7.16E-01 4.50E-01 3.95E-01 3.05E-01 9.95E-01 8.75E-01 1.96E-02

13 PHF11 rs2247119 48985143 T C 0.30 7.85E-01 7.85E-01 7.17E-01 7.17E-01 2.85E-01 2.85E-01 8.69E-01

13 PHF11 rs9596127 48986134 G T 0.03 5.27E-02 5.27E-02 5.27E-02 5.27E-02

13 PHF11 rs9568232 48987845 C T 0.06 1.42E-01 1.42E-01 6.31E-01 5.85E-01 4.67E-01 4.67E-01 5.23E-01

13 PHF11 rs8000149 48988026 C T 0.65 6.84E-01 5.78E-01 9.80E-01 6.45E-01 7.49E-01 8.09E-01 2.17E-03

13 PHF11 rs7329078 48990487 T C 0.62 6.43E-01 5.53E-01 7.93E-01 8.93E-01 5.67E-01 5.42E-01 1.06E-02

13 PHF11 rs17381926 48992091 T C 0.04 1.66E-01 1.66E-01 3.98E-01 3.98E-01 8.83E-02 8.83E-02 8.44E-01

13 PHF11 rs7332573 48996377 G T 0.07 7.76E-01 7.76E-01 3.45E-01 3.55E-01 7.07E-01 7.07E-01 9.08E-01

13 PHF11 rs2980 48999074 C T 0.55 9.50E-01 8.35E-01 8.47E-01 6.48E-01 9.82E-01 9.76E-01 6.35E-03

13 PHF11 rs2981 48999095 G A 0.55 9.54E-01 8.45E-01 8.81E-01 6.82E-01 9.51E-01 9.50E-01 5.72E-03

13 PHF11 rs9526569 49000220 C T 0.62 7.71E-01 7.05E-01 7.07E-01 7.59E-01 6.07E-01 5.85E-01 7.98E-03

13 PHF11 rs7323716 49001613 C T 0.54 8.11E-01 8.11E-01 8.69E-01 6.61E-01 9.45E-01 8.82E-01 7.30E-03

13 PHF11 rs9568238 49002445 C T 0.08 2.50E-01 2.50E-01 2.49E-01 2.49E-01 2.22E-01 2.22E-01 8.45E-01

20 ADAM33 rs3918395 3601149 C A 0.13 5.76E-01 5.83E-01 7.79E-01 7.79E-01 3.59E-01 3.70E-01 4.15E-01

20 ADAM33 rs2853210 3606211 T C 0.75 9.82E-01 9.82E-01 8.10E-01 8.10E-01 2.29E-01 2.29E-01 6.07E-01

20 ADAM33 rs487377 3606931 C T 0.20 9.11E-01 7.79E-01 2.21E-01 2.03E-02 3.89E-01 2.40E-01 1.91E-01

20 ADAM33 rs554743 3610142 C T 0.70 8.87E-01 9.35E-01 1.36E-01 1.36E-01 5.30E-01 5.30E-01 6.42E-01

P_random and P_fixed are respectively the P-values for test of association of marker with disease using random or fixed effects model respectively

P_heterogeneity = P-value of Cochran's Q test for heterogeneity of ORs across all studies

Supplementary Table 4

Results of asthma meta-analysis for previously reported genes in genome-wide association studies for lung function

Gene Marker P_random P_fixed P_random P_fixed P_random P_fixed

2 TNS1 rs4674147 2.18E+08 A G 0.11 7.89E-01 7.78E-01 8.85E-02 8.85E-02 6.31E-01 5.63E-01 2.14E-01

2 TNS1 rs10209401 2.18E+08 A C 0.89 9.90E-01 9.79E-01 1.46E-01 1.46E-01 7.94E-01 7.70E-01 3.73E-01

2 TNS1 rs4674150 2.18E+08 T C 0.11 7.74E-01 7.59E-01 2.74E-01 2.74E-01 7.56E-01 6.71E-01 2.05E-01

2 TNS1 rs16857347 2.18E+08 C T 0.04 9.15E-01 9.70E-01 6.04E-01 6.04E-01 7.91E-01 7.91E-01 6.22E-01

2 TNS1 rs899283 2.18E+08 T C 0.90 7.50E-01 7.91E-01 3.41E-01 3.41E-01 7.94E-01 7.94E-01 4.80E-01

2 TNS1 rs6761655 2.18E+08 A G 0.18 3.95E-01 2.26E-01 1.00E-01 1.00E-01 1.38E-01 7.93E-02 4.14E-02

2 TNS1 rs6435978 2.18E+08 C T 0.14 9.54E-01 9.40E-01 5.39E-01 5.87E-01 8.20E-01 8.32E-01 1.24E-01

2 TNS1 rs7561131 2.18E+08 T C 0.21 4.80E-01 4.04E-01 1.19E-01 1.19E-01 2.06E-01 1.69E-01 1.11E-01

2 TNS1 rs6435979 2.18E+08 T C 0.25 7.14E-01 7.09E-01 1.34E-01 1.34E-01 6.49E-01 6.49E-01 4.99E-01

2 TNS1 rs11680648 2.18E+08 C T 0.09 5.47E-01 5.47E-01 2.56E-01 2.56E-01 9.05E-01 9.05E-01 7.49E-01

2 TNS1 rs12620884 2.18E+08 G A 0.51 7.73E-01 7.73E-01 3.91E-01 4.76E-01 3.66E-01 3.02E-01 2.13E-01

2 TNS1 rs714862 2.18E+08 A G 0.15 6.54E-01 4.97E-01 1.41E-01 1.41E-01 6.07E-02 6.07E-02 5.37E-01

2 TNS1 rs6757890 2.18E+08 G A 0.15 6.35E-01 4.72E-01 2.14E-01 2.14E-01 5.93E-02 5.93E-02 4.87E-01

2 TNS1 rs6716223 2.18E+08 G A 0.09 6.25E-01 6.25E-01 2.54E-01 2.54E-01 8.56E-01 8.56E-01 6.20E-01

2 TNS1 rs899280 2.18E+08 C T 0.87 1.96E-02 1.96E-02 7.25E-01 7.25E-01 2.45E-01 2.45E-01 5.65E-01

2 TNS1 rs1351162 2.18E+08 G A 0.87 1.59E-02 1.59E-02 6.56E-01 6.56E-01 2.55E-01 2.55E-01 4.76E-01

2 TNS1 rs4674167 2.18E+08 T C 0.67 5.83E-02 5.64E-02 9.45E-02 9.45E-02 6.60E-01 7.43E-01 1.45E-01

2 rs981938 2.18E+08 G A 0.67 5.49E-02 5.27E-02 9.98E-02 9.98E-02 6.51E-01 7.21E-01 1.60E-01

2 rs4674168 2.18E+08 T C 0.58 2.82E-01 2.82E-01 4.53E-01 4.53E-01 9.34E-01 9.34E-01 6.08E-01

2 TNS1 rs2162001 2.18E+08 T C 0.58 2.96E-01 2.96E-01 4.02E-01 4.02E-01 8.37E-01 8.37E-01 6.60E-01

2 TNS1 rs17805641 2.18E+08 C T 0.05 1.58E-01 1.68E-01 7.02E-01 7.02E-01 1.82E-01 1.82E-01 6.41E-01

2 TNS1 rs1478581 2.18E+08 G A 0.17 9.59E-01 8.61E-01 3.74E-02 1.70E-02 1.98E-01 1.14E-01 1.78E-01

2 TNS1 rs1382435 2.18E+08 T C 0.67 6.37E-01 6.37E-01 6.22E-01 6.22E-01 2.65E-01 2.65E-01 7.96E-01

2 TNS1 rs16857630 2.18E+08 T G 0.12 9.97E-01 7.84E-01 3.17E-02 3.17E-02 1.45E-01 8.98E-02 2.18E-01

2 TNS1 rs13008330 2.18E+08 C T 0.13 4.19E-01 4.19E-01 3.34E-01 3.34E-01 5.16E-01 5.16E-01 6.93E-01

2 TNS1 rs2568176 2.18E+08 G A 0.29 5.05E-01 5.05E-01 8.99E-02 8.99E-02 1.01E-01 1.01E-01 9.57E-01

2 rs2618148 2.18E+08 C T 0.29 3.02E-01 2.71E-01 1.78E-01 1.78E-01 4.15E-02 4.15E-02 7.12E-01

2 TNS1 rs966423 2.18E+08 C T 0.58 6.21E-01 6.49E-01 2.43E-01 2.43E-01 3.53E-01 3.53E-01 6.57E-01

2 TNS1 rs6735237 2.18E+08 G A 0.13 5.27E-01 5.27E-01 4.49E-01 4.49E-01 4.58E-01 4.58E-01 6.06E-01

2 TNS1 rs2618139 2.18E+08 G A 0.35 7.81E-01 9.33E-01 5.32E-01 5.32E-01 3.29E-01 3.29E-01 6.65E-01

2 TNS1 rs1478583 2.18E+08 T C 0.14 6.97E-01 9.63E-01 1.69E-01 9.38E-02 4.01E-01 1.74E-01 2.35E-02

2 TNS1 rs768435 2.18E+08 C T 0.29 8.06E-01 6.06E-01 6.03E-01 6.03E-01 1.72E-01 1.64E-01 4.37E-01

2 TNS1 rs4555323 2.18E+08 C A 0.15 4.33E-01 4.33E-01 2.54E-01 2.54E-01 6.52E-01 6.52E-01 6.02E-01

2 TNS1 rs874840 2.18E+08 C T 0.29 8.00E-01 5.85E-01 4.99E-01 4.99E-01 1.37E-01 1.37E-01 4.88E-01

2 TNS1 rs10490765 2.18E+08 T C 0.15 4.61E-01 4.61E-01 2.37E-01 2.37E-01 6.85E-01 6.85E-01 5.39E-01

2 TNS1 rs6725886 2.18E+08 G A 0.15 4.56E-01 4.56E-01 2.60E-01 2.60E-01 6.66E-01 6.66E-01 5.77E-01

2 TNS1 rs6754268 2.18E+08 A G 0.29 7.69E-01 5.34E-01 6.14E-01 6.14E-01 1.51E-01 1.51E-01 4.72E-01

2 TNS1 rs12472818 2.18E+08 T C 0.51 9.62E-01 6.99E-01 5.16E-01 5.16E-01 4.41E-01 3.62E-01 6.88E-02

2 TNS1 rs2373067 2.18E+08 G A 0.43 6.40E-01 3.52E-01 5.33E-01 5.33E-01 4.45E-01 3.52E-01 2.73E-02

2 TNS1 rs2373068 2.18E+08 T G 0.30 4.19E-01 2.73E-01 2.75E-01 2.75E-01 9.63E-01 8.67E-01 6.44E-03

2 TNS1 rs4372880 2.18E+08 C T 0.12 9.93E-01 8.28E-01 1.42E-02 1.42E-02 8.49E-02 5.39E-02 2.47E-01

2 TNS1 rs9989823 2.18E+08 C T 0.12 8.44E-01 9.75E-01 1.83E-02 1.83E-02 1.30E-01 9.18E-02 2.58E-01

2 TNS1 rs2373072 2.18E+08 C T 0.25 5.70E-01 3.76E-01 6.08E-02 3.49E-02 1.60E-01 1.17E-01 1.20E-01

2 TNS1 rs2373077 2.18E+08 C A 0.12 9.01E-01 9.43E-01 1.21E-02 1.21E-02 1.41E-01 1.03E-01 2.55E-01

2 TNS1 rs718686 2.18E+08 G A 0.22 6.87E-01 6.44E-01 1.73E-02 1.73E-02 1.30E-01 1.27E-01 4.42E-01

2 TNS1 rs750365 2.18E+08 C A 0.37 6.96E-01 6.70E-01 9.23E-01 9.23E-01 1.86E-01 1.86E-01 5.06E-01

2 TNS1 rs2373078 2.18E+08 C T 0.11 8.67E-01 8.23E-01 4.91E-01 4.91E-01 9.18E-01 9.18E-01 5.82E-01

2 TNS1 rs1002353 2.18E+08 T C 0.22 5.86E-01 5.56E-01 8.93E-01 8.64E-01 8.35E-01 7.80E-01 3.06E-01

2 TNS1 rs2373079 2.18E+08 G A 0.12 5.51E-01 5.51E-01 3.19E-01 3.19E-01 8.78E-01 8.78E-01 7.77E-01

2 TNS1 rs3796025 2.18E+08 C T 0.28 7.44E-01 7.44E-01 6.66E-01 6.66E-01 8.47E-01 8.47E-01 7.46E-01

2 TNS1 rs17203333 2.18E+08 T C 0.15 8.74E-01 8.74E-01 8.80E-01 7.41E-01 8.05E-01 8.35E-01 3.15E-01

2 TNS1 rs4672833 2.18E+08 T C 0.29 8.20E-01 8.20E-01 3.93E-01 3.93E-01 6.73E-01 6.73E-01 7.72E-01

2 rs4674189 2.18E+08 C T 0.13 4.92E-01 4.09E-01 1.27E-01 1.27E-01 7.82E-01 7.82E-01 5.41E-01

2 TNS1 rs13007483 2.18E+08 T C 0.28 8.20E-01 8.20E-01 9.26E-01 9.35E-01 8.67E-01 8.67E-01 5.39E-01

2 TNS1 rs12185655 2.18E+08 A G 0.35 9.93E-01 9.93E-01 8.95E-01 9.92E-01 9.90E-01 9.90E-01 6.78E-01

2 TNS1 rs2373081 2.18E+08 C T 0.27 8.20E-01 8.20E-01 7.23E-01 7.33E-01 7.92E-01 7.92E-01 7.00E-01

2 TNS1 rs17809661 2.18E+08 A G 0.18 6.16E-01 6.16E-01 3.91E-01 3.85E-01 5.56E-01 5.56E-01 8.25E-01

2 TNS1 rs11678308 2.18E+08 C T 0.11 3.40E-01 3.40E-01 9.00E-01 9.00E-01 8.60E-01 8.60E-01 6.91E-01

2 TNS1 rs7596630 2.18E+08 G A 0.33 5.18E-01 5.18E-01 3.95E-01 4.39E-01 5.32E-01 5.32E-01 6.95E-01

2 TNS1 rs6714500 2.18E+08 C T 0.13 2.49E-01 2.49E-01 9.93E-01 9.93E-01 7.71E-01 7.71E-01 7.28E-01

2 TNS1 rs6714412 2.18E+08 C T 0.26 5.56E-01 5.56E-01 7.01E-01 7.01E-01 7.12E-01 7.58E-01 3.78E-01

2 TNS1 rs6719545 2.18E+08 T G 0.29 6.03E-01 6.03E-01 5.71E-01 5.71E-01 7.40E-01 7.40E-01 4.75E-01

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

Chromosome

Position

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset

+ severe + industrial

asthma)

Supplementary Table 4

Results of asthma meta-analysis for previously reported genes in genome-wide association studies for lung function

Gene Marker P_random P_fixed P_random P_fixed P_random P_fixed

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

Chromosome

Position

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset

+ severe + industrial

asthma)

2 TNS1 rs11686077 2.18E+08 T C 0.16 7.43E-01 7.43E-01 3.73E-01 3.75E-01 6.58E-01 6.58E-01 6.48E-01

2 TNS1 rs1549733 2.18E+08 C T 0.20 1.58E-01 1.58E-01 7.68E-01 7.68E-01 5.74E-01 5.74E-01 7.35E-01

2 TNS1 rs7563651 2.18E+08 G A 0.08 3.20E-01 3.20E-01 3.50E-01 3.50E-01 9.01E-01 8.61E-01 3.97E-01

2 TNS1 rs7601355 2.18E+08 T C 0.02 2.87E-01 2.87E-01 2.87E-01 2.87E-01

2 TNS1 rs4674196 2.18E+08 A G 0.90 9.54E-01 9.54E-01 3.83E-01 3.83E-01 3.74E-01 3.74E-01 5.21E-01

2 TNS1 rs6733585 2.18E+08 A G 0.90 7.03E-01 7.03E-01 4.47E-01 4.47E-01 2.78E-01 2.78E-01 4.93E-01

2 TNS1 rs7578283 2.18E+08 C T 0.90 9.48E-01 9.48E-01 4.19E-01 4.19E-01 4.37E-01 4.37E-01 4.82E-01

2 TNS1 rs13430930 2.18E+08 A G 0.05 6.46E-01 6.12E-01 3.92E-01 3.92E-01 3.32E-01 3.23E-01 3.60E-01

2 TNS1 rs6759238 2.18E+08 G A 0.56 6.96E-01 6.96E-01 6.82E-01 6.82E-01 4.46E-01 4.46E-01 8.30E-01

2 TNS1 rs1430125 2.18E+08 G A 0.87 5.06E-01 5.06E-01 7.92E-01 7.92E-01 9.60E-01 9.60E-01 6.88E-01

2 TNS1 rs6761086 2.18E+08 T C 0.89 8.98E-01 8.98E-01 7.88E-01 7.88E-01 5.96E-01 5.96E-01 5.40E-01

2 TNS1 rs4674200 2.18E+08 C A 0.89 9.30E-01 9.30E-01 8.08E-01 8.08E-01 4.02E-01 4.02E-01 5.61E-01

2 TNS1 rs10932725 2.18E+08 T C 0.77 2.58E-01 1.90E-01 5.28E-01 6.89E-01 4.10E-01 4.49E-01 1.77E-01

2 TNS1 rs934241 2.18E+08 G A 0.12 2.63E-01 9.39E-02 7.87E-01 7.87E-01 2.02E-01 1.50E-01 2.44E-01

2 TNS1 rs11688171 2.18E+08 C A 0.07 8.96E-01 8.96E-01 5.13E-01 5.13E-01 5.58E-01 5.58E-01 8.45E-01

2 TNS1 rs727511 2.18E+08 G A 0.90 8.27E-01 8.27E-01 9.77E-01 9.77E-01 5.98E-01 5.98E-01 6.69E-01

2 TNS1 rs10168801 2.18E+08 G A 0.79 5.95E-02 5.95E-02 5.55E-01 5.55E-01 1.46E-01 1.46E-01 6.02E-01

2 TNS1 rs7562385 2.18E+08 C T 0.90 7.39E-01 7.39E-01 7.95E-01 7.95E-01 9.07E-01 9.07E-01 6.31E-01

2 TNS1 rs4674206 2.18E+08 T G 0.90 5.74E-01 5.74E-01 6.77E-01 6.77E-01 9.95E-01 9.95E-01 5.74E-01

2 TNS1 rs11686995 2.18E+08 A G 0.93 7.85E-01 7.85E-01 8.08E-01 8.08E-01 5.80E-01 5.80E-01 9.39E-01

2 TNS1 rs10932727 2.18E+08 G A 0.07 9.09E-01 9.09E-01 7.74E-01 7.74E-01 8.84E-01 8.84E-01 9.67E-01

2 TNS1 rs11683371 2.18E+08 G T 0.13 4.38E-01 4.56E-01 2.07E-01 2.07E-01 7.62E-01 6.61E-01 2.48E-01

2 TNS1 rs7574419 2.18E+08 G A 0.86 2.28E-02 2.28E-02 6.97E-02 6.97E-02 4.44E-02 4.33E-02 4.20E-01

2 TNS1 rs2052928 2.18E+08 C T 0.84 4.47E-01 3.96E-01 1.46E-01 1.46E-01 1.61E-01 1.61E-01 5.40E-01

2 TNS1 rs11677547 2.18E+08 T C 0.33 4.33E-01 3.96E-01 6.60E-01 6.63E-01 9.28E-01 9.24E-01 2.39E-01

2 TNS1 rs1430134 2.18E+08 C T 0.94 2.92E-01 3.20E-01 7.29E-01 7.29E-01 3.01E-01 2.98E-01 2.72E-01

2 rs1814355 2.18E+08 T C 0.95 6.13E-01 7.32E-01 8.81E-01 8.81E-01 7.49E-01 7.49E-01 4.61E-01

2 TNS1 rs7560625 2.18E+08 A G 0.40 7.55E-01 6.88E-01 9.77E-01 9.47E-01 8.17E-01 7.23E-01 6.84E-02

2 TNS1 rs1430133 2.18E+08 G A 0.47 6.75E-01 6.32E-01 4.29E-01 2.84E-01 3.52E-01 3.14E-01 3.95E-02

2 TNS1 rs1835338 2.18E+08 C T 0.40 7.64E-01 6.99E-01 8.63E-01 7.95E-01 8.88E-01 8.06E-01 6.65E-02

2 TNS1 rs7590353 2.18E+08 G A 0.03 8.28E-01 8.28E-01 1.73E-01 1.73E-01 5.89E-01 6.70E-01 1.90E-01

2 TNS1 rs7590461 2.18E+08 G A 0.40 6.90E-01 6.19E-01 9.11E-01 8.64E-01 8.36E-01 7.66E-01 8.94E-02

2 TNS1 rs7563783 2.18E+08 A C 0.40 7.04E-01 6.22E-01 9.02E-01 8.62E-01 8.26E-01 7.40E-01 7.99E-02

2 TNS1 rs1583109 2.18E+08 T C 0.07 6.60E-01 6.60E-01 6.58E-01 7.16E-01 4.12E-01 4.12E-01 8.66E-01

2 TNS1 rs10197943 2.18E+08 T C 0.58 6.60E-01 5.67E-01 4.81E-01 4.81E-01 8.88E-01 9.65E-01 3.95E-02

2 TNS1 rs2373146 2.18E+08 T C 0.34 8.62E-01 8.19E-01 6.60E-01 6.61E-01 6.26E-01 6.11E-01 2.72E-01

2 TNS1 rs11686435 2.18E+08 G A 0.56 5.44E-01 5.27E-01 2.18E-01 1.34E-01 2.06E-01 1.72E-01 1.80E-01

2 TNS1 rs7577167 2.18E+08 T G 0.17 9.34E-01 9.36E-01 1.03E-01 1.03E-01 2.93E-01 2.93E-01 6.11E-01

2 TNS1 rs11677208 2.18E+08 T C 0.11 9.08E-01 9.08E-01 2.44E-01 1.95E-01 2.27E-01 2.27E-01 7.13E-01

2 TNS1 rs2552517 2.18E+08 A G 0.51 8.12E-01 8.40E-01 2.41E-01 1.93E-01 2.37E-01 1.49E-01 3.55E-02

2 TNS1 rs11684943 2.18E+08 T C 0.11 9.10E-01 7.99E-01 3.79E-01 3.79E-01 7.57E-01 7.55E-01 4.60E-01

2 TNS1 rs2571457 2.18E+08 G A 0.57 6.28E-01 5.88E-01 5.84E-01 4.84E-01 2.25E-01 1.65E-01 1.90E-01

2 TNS1 rs4674213 2.18E+08 T C 0.09 6.55E-01 5.89E-01 4.24E-01 4.23E-01 5.41E-01 5.23E-01 3.75E-01

2 TNS1 rs768921 2.18E+08 G A 0.05 4.09E-01 4.09E-01 4.71E-01 4.71E-01 8.67E-02 8.67E-02 8.23E-01

2 TNS1 rs3747 2.18E+08 T G 0.50 6.38E-01 6.53E-01 4.29E-01 3.68E-01 4.65E-01 4.66E-01 2.48E-01

2 TNS1 rs1035671 2.18E+08 C T 0.07 7.00E-01 6.63E-01 8.26E-01 8.26E-01 7.55E-01 7.55E-01 4.46E-01

2 TNS1 rs918949 2.18E+08 C T 0.60 1.98E-01 1.12E-01 7.61E-01 8.36E-01 3.84E-01 2.67E-01 2.21E-01

2 TNS1 rs1035672 2.18E+08 G A 0.60 2.00E-01 1.14E-01 7.09E-01 8.21E-01 3.91E-01 2.61E-01 1.91E-01

2 TNS1 rs2059408 2.18E+08 T C 0.19 5.62E-01 4.91E-01 7.40E-01 7.40E-01 2.82E-01 2.82E-01 5.12E-01

2 TNS1 rs2161969 2.18E+08 G A 0.48 2.16E-01 9.15E-02 6.86E-01 6.86E-01 4.58E-01 3.19E-01 8.18E-02

2 TNS1 rs2552527 2.18E+08 T G 0.41 8.45E-01 6.17E-01 2.51E-01 3.09E-01 2.58E-01 2.09E-01 1.23E-01

2 TNS1 rs2571435 2.18E+08 C T 0.25 6.83E-01 6.74E-01 5.05E-01 5.05E-01 5.71E-01 5.70E-01 4.45E-01

2 TNS1 rs6729308 2.18E+08 G A 0.44 3.18E-01 2.22E-01 4.21E-01 3.88E-01 8.14E-01 6.90E-01 4.92E-02

2 TNS1 rs2571440 2.18E+08 T C 0.83 3.93E-01 3.38E-01 8.08E-01 9.33E-01 8.03E-01 8.27E-01 1.40E-01

2 TNS1 rs11677276 2.18E+08 G A 0.47 2.28E-01 2.28E-01 7.47E-01 7.15E-01 4.06E-01 4.00E-01 4.46E-01

2 TNS1 rs1008835 2.18E+08 A G 0.12 5.96E-01 5.96E-01 2.36E-01 2.36E-01 5.42E-01 5.42E-01 7.86E-01

2 TNS1 rs929937 2.18E+08 T C 0.37 6.52E-01 6.52E-01 3.49E-01 3.49E-01 5.08E-01 5.08E-01 8.18E-01

2 TNS1 rs3796033 2.18E+08 G A 0.30 6.01E-01 6.01E-01 5.11E-01 5.11E-01 3.92E-01 3.92E-01 6.19E-01

2 TNS1 rs3791978 2.18E+08 A C 0.48 2.20E-01 1.82E-01 9.30E-01 9.30E-01 5.43E-01 5.43E-01 6.57E-01

2 TNS1 rs3791975 2.18E+08 A G 0.12 7.55E-01 7.55E-01 5.56E-02 5.36E-02 2.23E-01 2.23E-01 9.59E-01

2 TNS1 rs2059409 2.18E+08 C T 0.06 4.47E-01 4.47E-01 5.55E-01 5.55E-01 8.52E-01 8.52E-01 8.90E-01

2 TNS1 rs3791966 2.18E+08 G A 0.05 3.62E-01 3.62E-01 2.55E-01 2.55E-01 7.95E-01 7.95E-01 9.86E-01

Supplementary Table 4

Results of asthma meta-analysis for previously reported genes in genome-wide association studies for lung function

Gene Marker P_random P_fixed P_random P_fixed P_random P_fixed

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

Chromosome

Position

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset

+ severe + industrial

asthma)

2 TNS1 rs3791962 2.18E+08 T C 0.27 4.57E-01 4.55E-01 7.54E-01 7.62E-01 8.65E-01 8.46E-01 2.92E-01

2 TNS1 rs3791961 2.18E+08 A C 0.32 7.17E-01 7.50E-01 6.35E-01 5.44E-01 7.82E-01 7.53E-01 5.78E-02

2 TNS1 rs3791957 2.18E+08 A G 0.51 6.15E-02 3.30E-02 5.39E-01 5.39E-01 5.87E-01 5.55E-01 2.64E-01

2 TNS1 rs3791953 2.18E+08 C A 0.17 8.83E-02 8.83E-02 5.62E-01 5.54E-01 6.97E-01 6.87E-01 4.23E-01

2 TNS1 rs1035674 2.18E+08 A G 0.92 3.05E-01 2.86E-01 4.81E-01 4.81E-01 3.74E-01 3.74E-01 5.54E-01

2 TNS1 rs10204348 2.18E+08 A G 0.39 4.60E-01 4.60E-01 3.96E-01 3.59E-01 6.80E-01 6.74E-01 2.46E-01

2 TNS1 rs2042542 2.18E+08 A G 0.34 2.73E-01 2.73E-01 6.89E-02 6.89E-02 5.35E-01 5.22E-01 3.63E-01

2 TNS1 rs13407109 2.18E+08 G T 0.38 1.26E-02 1.26E-02 2.20E-01 1.78E-01 4.54E-01 4.26E-01 2.05E-01

2 TNS1 rs1424916 2.18E+08 T C 0.52 1.79E-01 7.32E-02 5.80E-01 5.80E-01 6.09E-01 4.87E-01 7.32E-02

2 TNS1 rs4674220 2.18E+08 G A 0.53 8.77E-02 3.21E-02 2.96E-01 2.96E-01 6.18E-01 4.52E-01 4.11E-02

2 TNS1 rs3791943 2.18E+08 A G 0.10 2.77E-01 2.89E-01 3.07E-01 3.93E-01 6.25E-01 6.68E-01 8.05E-02

2 TNS1 rs890049 2.18E+08 C T 0.44 8.31E-01 7.85E-01 9.51E-01 9.51E-01 9.18E-01 9.18E-01 5.33E-01

2 TNS1 rs7421896 2.18E+08 A G 0.06 4.07E-01 4.07E-01 4.23E-01 4.23E-01 6.53E-01 6.53E-01 9.98E-01

2 TNS1 rs3791940 2.18E+08 G A 0.09 6.18E-01 6.18E-01 3.44E-01 2.54E-01 7.50E-01 7.50E-01 9.12E-01

2 TNS1 rs12990490 2.18E+08 C T 0.09 6.16E-01 6.16E-01 3.79E-01 2.78E-01 7.53E-01 7.53E-01 9.30E-01

2 TNS1 rs3791938 2.18E+08 C T 0.32 1.15E-01 1.15E-01 8.02E-02 7.71E-02 7.70E-01 7.70E-01 5.63E-01

2 rs10174633 2.18E+08 T C 0.11 5.93E-01 5.93E-01 5.05E-01 5.05E-01 5.40E-01 5.40E-01 8.95E-01

2 TNS1 rs1808466 2.18E+08 A G 0.11 7.55E-01 7.55E-01 7.02E-01 7.02E-01 5.66E-01 5.66E-01 9.33E-01

2 TNS1 rs3791936 2.18E+08 T G 0.38 5.08E-02 5.08E-02 4.03E-01 1.74E-01 6.03E-01 6.27E-01 3.22E-01

2 TNS1 rs3791935 2.18E+08 G A 0.12 8.81E-01 8.81E-01 5.51E-01 1.66E-01 3.30E-01 3.30E-01 4.68E-01

2 TNS1 rs6755375 2.18E+08 C T 0.36 2.31E-01 2.30E-01 3.19E-01 9.29E-02 9.44E-01 7.58E-01 8.17E-02

2 TNS1 rs10199479 2.18E+08 G A 0.34 3.41E-01 3.59E-01 2.72E-01 4.14E-02 8.79E-01 5.88E-01 4.47E-02

2 TNS1 rs890051 2.18E+08 C T 0.36 1.93E-01 1.93E-01 4.53E-01 9.78E-02 6.96E-01 4.98E-01 8.94E-02

2 TNS1 rs13426335 2.18E+08 G A 0.24 5.94E-01 5.69E-01 9.20E-01 9.20E-01 6.19E-01 6.19E-01 4.86E-01

2 TNS1 rs13022785 2.18E+08 C T 0.62 5.00E-01 5.00E-01 8.98E-01 8.81E-01 8.48E-01 8.48E-01 8.88E-01

2 TNS1 rs3828280 2.18E+08 T C 0.06 8.40E-02 5.33E-02 8.05E-01 8.05E-01 8.62E-02 8.62E-02 7.23E-01

2 TNS1 rs3791913 2.18E+08 A G 0.27 3.50E-02 1.39E-02 1.22E-01 1.22E-01 4.94E-01 4.89E-01 4.28E-02

2 TNS1 rs3791911 2.19E+08 G A 0.17 2.41E-01 1.49E-01 5.24E-02 5.24E-02 7.26E-01 7.83E-01 4.13E-02

2 TNS1 rs3791906 2.19E+08 T C 0.16 5.45E-01 5.73E-01 7.82E-01 7.82E-01 3.68E-01 3.68E-01 4.92E-01

2 TNS1 rs3791904 2.19E+08 T C 0.08 7.20E-01 7.20E-01 2.32E-01 2.32E-01 5.51E-01 5.51E-01 8.42E-01

2 TNS1 rs6753621 2.19E+08 G A 0.22 5.97E-01 5.97E-01 2.70E-01 2.70E-01 1.90E-01 1.90E-01 8.90E-01

2 TNS1 rs1549589 2.19E+08 G A 0.23 7.50E-01 7.50E-01 4.40E-01 4.40E-01 3.68E-01 3.68E-01 8.53E-01

2 TNS1 rs3791890 2.19E+08 A G 0.08 3.55E-01 3.61E-01 5.39E-01 5.39E-01 6.09E-02 6.09E-02 5.16E-01

2 rs7573770 2.19E+08 C T 0.12 8.97E-01 8.97E-01 2.65E-01 2.65E-01 9.02E-01 9.02E-01 6.36E-01

2 TNS1 rs16858496 2.19E+08 G A 0.04 4.30E-01 4.30E-01 6.32E-01 6.32E-01 1.89E-01 1.89E-01 4.83E-01

2 TNS1 rs3791884 2.19E+08 T C 0.21 6.31E-01 6.31E-01 4.36E-01 4.36E-01 9.17E-01 9.17E-01 8.13E-01

2 TNS1 rs11694996 2.19E+08 T C 0.09 4.80E-01 3.20E-01 4.23E-01 4.23E-01 7.62E-01 8.57E-01 2.23E-01

2 TNS1 rs13417602 2.19E+08 C T 0.10 2.73E-01 1.78E-01 1.12E-01 1.12E-01 6.47E-01 7.04E-01 1.20E-01

2 TNS1 rs12619872 2.19E+08 C T 0.27 9.15E-02 9.15E-02 2.98E-01 2.98E-01 6.61E-01 6.61E-01 9.32E-01

2 rs11674313 2.19E+08 C T 0.29 2.98E-02 2.98E-02 1.91E-01 1.91E-01 3.94E-01 3.94E-01 9.24E-01

2 TNS1 rs750132 2.19E+08 G A 0.11 6.55E-02 6.55E-02 4.99E-01 4.99E-01 5.17E-01 5.17E-01 7.15E-01

2 TNS1 rs1579406 2.19E+08 C A 0.12 3.37E-02 3.37E-02 1.58E-01 1.58E-01 6.57E-01 6.57E-01 4.88E-01

2 PID1 rs1435865 2.29E+08 G A 0.29 4.86E-02 4.86E-02 7.31E-01 7.31E-01 2.68E-02 2.68E-02 9.15E-01

2 PID1 rs6743558 2.29E+08 G A 0.29 6.64E-02 6.64E-02 7.72E-01 7.86E-01 4.71E-02 4.71E-02 8.66E-01

2 PID1 rs10199039 2.29E+08 C T 0.26 2.40E-01 2.40E-01 4.71E-01 4.47E-01 1.28E-01 1.28E-01 8.20E-01

2 PID1 rs7604908 2.29E+08 A G 0.24 5.27E-01 5.27E-01 2.82E-01 2.67E-01 6.64E-01 6.64E-01 7.44E-01

2 PID1 rs10498231 2.29E+08 C A 0.10 4.17E-01 4.17E-01 6.54E-01 6.54E-01 7.00E-01 7.00E-01 8.77E-01

2 PID1 rs3943747 2.29E+08 A C 0.34 2.19E-01 2.19E-01 4.16E-01 4.16E-01 9.16E-01 9.16E-01 9.56E-01

2 PID1 rs1435867 2.29E+08 T C 0.07 3.39E-01 3.39E-01 8.77E-01 8.91E-01 2.52E-01 2.50E-01 4.62E-01

2 PID1 rs1435862 2.29E+08 C T 0.35 2.31E-01 2.31E-01 3.67E-01 3.67E-01 8.90E-01 8.90E-01 9.30E-01

2 PID1 rs11890478 2.29E+08 A G 0.17 1.43E-01 1.43E-01 3.00E-01 3.00E-01 6.63E-01 6.63E-01 7.22E-01

2 PID1 rs11885362 2.29E+08 T C 0.17 1.08E-01 1.08E-01 2.44E-01 2.44E-01 6.40E-01 6.40E-01 7.17E-01

2 PID1 rs6737010 2.29E+08 C T 0.17 1.37E-01 1.37E-01 2.09E-01 2.09E-01 7.09E-01 7.09E-01 6.88E-01

2 PID1 rs6728100 2.29E+08 C T 0.27 5.43E-02 5.43E-02 5.40E-01 5.40E-01 4.17E-01 4.17E-01 5.95E-01

2 PID1 rs6752171 2.29E+08 G T 0.17 1.07E-01 1.07E-01 2.62E-01 2.62E-01 5.83E-01 5.83E-01 6.98E-01

2 PID1 rs10804346 2.29E+08 G A 0.10 3.56E-01 3.56E-01 6.50E-01 6.50E-01 5.62E-01 5.62E-01 9.07E-01

2 PID1 rs10188843 2.29E+08 T G 0.17 8.54E-02 8.54E-02 1.21E-01 1.21E-01 6.04E-01 6.04E-01 7.66E-01

2 PID1 rs1358443 2.29E+08 T C 0.17 8.35E-01 8.35E-01 6.89E-01 6.89E-01 7.25E-01 7.25E-01 9.92E-01

2 PID1 rs10177317 2.29E+08 T G 0.35 9.32E-02 9.32E-02 4.24E-01 4.24E-01 8.07E-01 8.07E-01 8.90E-01

2 PID1 rs10184640 2.29E+08 T C 0.27 2.53E-02 2.53E-02 4.53E-01 4.53E-01 3.45E-01 3.45E-01 4.74E-01

2 PID1 rs16825301 2.29E+08 C A 0.12 3.73E-01 3.73E-01 9.02E-01 9.02E-01 3.45E-01 3.45E-01 7.17E-01

Supplementary Table 4

Results of asthma meta-analysis for previously reported genes in genome-wide association studies for lung function

Gene Marker P_random P_fixed P_random P_fixed P_random P_fixed

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

Chromosome

Position

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset

+ severe + industrial

asthma)

2 PID1 rs1534458 2.29E+08 G A 0.49 5.04E-01 4.69E-01 4.43E-01 4.43E-01 3.84E-01 3.84E-01 6.77E-01

2 PID1 rs12328421 2.29E+08 A G 0.12 2.89E-01 2.81E-01 8.34E-01 8.34E-01 3.03E-01 3.03E-01 6.83E-01

2 PID1 rs6722400 2.29E+08 A G 0.49 4.55E-01 4.27E-01 4.50E-01 4.50E-01 4.27E-01 4.27E-01 6.78E-01

2 PID1 rs6726331 2.29E+08 A G 0.24 1.99E-02 1.99E-02 5.74E-01 5.74E-01 4.76E-01 4.66E-01 4.20E-01

2 PID1 rs7603424 2.29E+08 G A 0.12 2.73E-01 2.73E-01 8.21E-01 8.21E-01 2.91E-01 2.91E-01 6.89E-01

2 PID1 rs13390723 2.29E+08 C T 0.12 2.65E-01 2.65E-01 8.09E-01 8.09E-01 2.98E-01 2.98E-01 7.38E-01

2 PID1 rs6719964 2.29E+08 T C 0.14 5.36E-01 5.36E-01 7.12E-01 7.12E-01 3.09E-01 3.09E-01 8.21E-01

2 PID1 rs10451593 2.29E+08 T C 0.06 1.29E-01 1.29E-01 6.61E-01 6.61E-01 6.61E-02 6.61E-02 8.32E-01

2 rs4973125 2.29E+08 A G 0.40 7.56E-01 7.56E-01 6.59E-01 6.02E-01 4.06E-01 4.06E-01 5.72E-01

2 PID1 rs1405837 2.29E+08 T G 0.49 4.40E-01 3.88E-01 3.55E-01 3.55E-01 3.59E-01 3.59E-01 5.92E-01

2 PID1 rs11679180 2.29E+08 G A 0.24 6.59E-01 6.59E-01 9.45E-01 9.77E-01 6.66E-01 6.66E-01 6.34E-01

2 PID1 rs1881025 2.29E+08 G A 0.16 1.73E-01 1.73E-01 3.79E-01 3.79E-01 8.44E-01 8.44E-01 8.05E-01

2 PID1 rs6756903 2.29E+08 T C 0.50 6.36E-01 5.75E-01 4.69E-01 4.69E-01 3.00E-01 3.00E-01 5.44E-01

2 PID1 rs1527669 2.29E+08 G A 0.21 3.01E-01 2.26E-01 8.40E-01 8.40E-01 1.62E-01 1.62E-01 4.98E-01

2 PID1 rs3920427 2.29E+08 C T 0.16 2.05E-01 2.05E-01 3.02E-01 3.02E-01 9.97E-01 9.97E-01 7.53E-01

2 PID1 rs6712405 2.29E+08 G A 0.16 1.98E-01 1.98E-01 2.36E-01 2.36E-01 9.40E-01 9.40E-01 7.28E-01

2 PID1 rs776975 2.29E+08 T C 0.71 5.59E-02 5.59E-02 4.30E-01 4.30E-01 7.21E-01 7.21E-01 4.75E-01

2 PID1 rs12471368 2.29E+08 C T 0.13 5.90E-01 4.43E-01 3.31E-01 2.58E-01 1.98E-01 9.92E-02 1.31E-01

2 PID1 rs1527671 2.29E+08 C T 0.72 6.90E-02 6.90E-02 5.52E-01 5.52E-01 6.98E-01 6.91E-01 4.28E-01

2 PID1 rs11899696 2.29E+08 C T 0.08 4.83E-01 4.83E-01 8.69E-01 8.69E-01 7.16E-01 7.16E-01 9.88E-01

2 PID1 rs1881027 2.29E+08 T C 0.16 2.22E-01 2.22E-01 3.93E-01 3.51E-01 8.28E-01 8.28E-01 6.90E-01

2 PID1 rs4487082 2.29E+08 A G 0.07 6.28E-01 5.64E-01 9.18E-01 9.18E-01 6.47E-01 6.47E-01 6.75E-01

2 PID1 rs12996281 2.29E+08 T C 0.11 9.15E-01 9.76E-01 3.78E-01 3.78E-01 5.27E-01 5.27E-01 6.02E-01

2 PID1 rs13002075 2.29E+08 T G 0.74 1.29E-01 1.29E-01 5.52E-01 5.52E-01 5.02E-01 5.02E-01 8.27E-01

2 PID1 rs800733 2.29E+08 G A 0.08 5.18E-01 5.18E-01 8.35E-01 8.35E-01 6.63E-01 6.63E-01 9.90E-01

2 PID1 rs800736 2.29E+08 G A 0.41 1.20E-01 1.20E-01 4.85E-01 4.85E-01 9.96E-01 9.96E-01 4.96E-01

2 PID1 rs11893007 2.29E+08 G T 0.06 7.95E-01 7.95E-01 6.64E-02 6.64E-02 7.06E-01 7.06E-01 8.18E-01

2 PID1 rs7578485 2.29E+08 G A 0.21 1.82E-01 1.82E-01 9.80E-01 9.80E-01 4.77E-01 4.77E-01 6.85E-01

2 PID1 rs13428414 2.29E+08 T C 0.26 5.98E-02 4.99E-02 2.54E-01 2.33E-01 7.27E-01 5.72E-01 2.08E-01

2 PID1 rs800746 2.29E+08 A G 0.62 5.96E-01 5.57E-01 6.53E-01 6.53E-01 9.53E-01 9.53E-01 7.46E-01

2 PID1 rs9288639 2.29E+08 T C 0.08 4.94E-01 4.94E-01 2.90E-01 2.49E-01 4.77E-01 4.77E-01 9.79E-01

2 PID1 rs17439556 2.29E+08 G A 0.08 3.59E-01 3.59E-01 7.68E-01 7.68E-01 6.88E-01 6.88E-01 9.96E-01

2 PID1 rs800727 2.29E+08 C T 0.24 5.54E-01 5.54E-01 3.99E-01 3.99E-01 9.73E-01 9.73E-01 8.04E-01

2 PID1 rs800729 2.29E+08 C T 0.49 8.13E-01 8.22E-01 7.44E-01 7.44E-01 9.70E-01 9.70E-01 7.67E-01

2 PID1 rs800742 2.29E+08 C T 0.08 6.78E-01 6.78E-01 9.05E-01 9.05E-01 9.76E-01 9.76E-01 9.98E-01

2 PID1 rs809616 2.29E+08 G A 0.14 9.88E-01 9.88E-01 3.87E-01 3.87E-01 9.31E-01 9.31E-01 9.70E-01

2 PID1 rs2216300 2.29E+08 T C 0.30 5.11E-01 5.11E-01 8.47E-01 8.47E-01 9.89E-01 9.89E-01 9.24E-01

2 PID1 rs7600415 2.29E+08 G A 0.61 5.99E-02 5.99E-02 8.20E-01 8.20E-01 3.38E-01 3.38E-01 6.33E-01

2 PID1 rs2396595 2.29E+08 T C 0.52 1.24E-02 1.24E-02 6.56E-01 6.56E-01 3.24E-01 3.21E-01 4.57E-01

2 PID1 rs10205926 2.29E+08 T C 0.23 2.45E-01 2.45E-01 5.87E-01 5.87E-01 8.08E-01 8.17E-01 3.37E-01

2 PID1 rs11901307 2.29E+08 G T 0.15 9.65E-01 9.60E-01 9.04E-01 9.04E-01 5.14E-01 5.14E-01 6.25E-01

2 PID1 rs7558980 2.3E+08 A G 0.10 3.90E-02 3.90E-02 3.66E-01 3.66E-01 2.43E-01 2.43E-01 7.51E-01

2 PID1 rs9808412 2.3E+08 C T 0.14 5.70E-01 5.70E-01 9.84E-01 9.84E-01 4.65E-01 4.65E-01 8.54E-01

2 PID1 rs6705266 2.3E+08 C T 0.29 1.59E-01 9.89E-02 4.21E-01 3.74E-01 4.40E-01 3.14E-01 2.29E-01

2 PID1 rs11904789 2.3E+08 C T 0.11 1.30E-01 1.30E-01 3.44E-01 3.44E-01 5.34E-01 5.29E-01 4.53E-01

2 PID1 rs7593561 2.3E+08 T G 0.09 6.59E-01 2.90E-01 4.16E-01 4.16E-01 8.81E-01 7.48E-01 1.18E-01

2 PID1 rs995159 2.3E+08 T C 0.29 1.50E-01 1.03E-01 4.52E-01 4.46E-01 3.79E-01 3.11E-01 3.25E-01

2 PID1 rs10203445 2.3E+08 A C 0.11 2.51E-01 2.11E-01 3.72E-01 3.72E-01 7.31E-01 7.20E-01 4.20E-01

2 PID1 rs10180529 2.3E+08 T C 0.24 6.69E-01 6.69E-01 4.30E-01 4.30E-01 8.64E-01 8.37E-01 3.87E-01

2 PID1 rs11894050 2.3E+08 C A 0.26 5.01E-01 5.01E-01 6.03E-01 6.03E-01 7.84E-01 7.79E-01 4.53E-01

2 PID1 rs1072282 2.3E+08 C T 0.26 4.92E-01 4.92E-01 6.12E-01 6.12E-01 8.07E-01 8.07E-01 4.70E-01

2 PID1 rs13410077 2.3E+08 G A 0.31 8.77E-01 8.77E-01 5.60E-01 5.06E-01 5.64E-01 5.26E-01 3.85E-01

2 PID1 rs7559725 2.3E+08 T C 0.07 9.31E-01 9.58E-01 4.50E-01 4.47E-01 3.69E-01 3.48E-01 3.63E-01

2 PID1 rs3856525 2.3E+08 A G 0.10 6.15E-01 3.54E-01 6.91E-01 6.91E-01 9.13E-01 9.48E-01 2.92E-01

2 PID1 rs11896102 2.3E+08 G A 0.35 4.41E-01 4.41E-01 4.09E-01 4.09E-01 9.52E-01 9.52E-01 9.92E-01

2 PID1 rs3903945 2.3E+08 T C 0.73 7.69E-01 6.48E-01 8.89E-01 8.29E-01 9.33E-01 9.38E-01 3.23E-01

2 PID1 rs1544688 2.3E+08 T C 0.41 3.54E-01 3.54E-01 7.43E-01 7.60E-01 1.89E-01 1.89E-01 7.24E-01

2 PID1 rs2072556 2.3E+08 T C 0.11 6.25E-01 6.25E-01 4.46E-01 4.14E-01 9.76E-01 8.55E-01 1.19E-01

2 PID1 rs12619625 2.3E+08 A G 0.94 7.56E-01 7.56E-01 6.67E-01 6.67E-01 9.15E-01 9.15E-01 6.75E-01

2 PID1 rs10211472 2.3E+08 C T 0.31 6.06E-01 6.06E-01 9.94E-01 9.36E-01 2.31E-01 2.31E-01 7.36E-01

2 PID1 rs10490035 2.3E+08 T G 0.10 7.53E-01 7.52E-01 5.56E-01 7.23E-01 9.62E-01 9.46E-01 1.26E-01

2 PID1 rs3771286 2.3E+08 T C 0.42 6.02E-01 5.92E-01 8.57E-01 9.79E-01 4.40E-01 3.98E-01 2.14E-01

Supplementary Table 4

Results of asthma meta-analysis for previously reported genes in genome-wide association studies for lung function

Gene Marker P_random P_fixed P_random P_fixed P_random P_fixed

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

Chromosome

Position

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset

+ severe + industrial

asthma)

2 PID1 rs6436823 2.3E+08 G A 0.11 6.75E-01 7.05E-01 6.71E-01 6.50E-01 8.04E-01 6.54E-01 1.17E-01

2 PID1 rs7594377 2.3E+08 T C 0.14 7.21E-01 7.21E-01 6.74E-01 7.77E-01 9.84E-01 9.89E-01 4.40E-01

2 PID1 rs2536214 2.3E+08 C T 0.41 3.05E-01 3.05E-01 9.13E-01 9.61E-01 4.23E-01 4.23E-01 5.98E-01

2 PID1 rs10933273 2.3E+08 G A 0.18 9.45E-01 9.45E-01 2.70E-01 2.47E-01 2.26E-01 2.26E-01 8.91E-01

2 PID1 rs3845823 2.3E+08 T G 0.58 6.89E-01 6.89E-01 7.69E-01 7.37E-01 7.67E-01 7.67E-01 6.30E-01

2 PID1 rs2109818 2.3E+08 G A 0.54 9.77E-01 9.54E-01 7.43E-01 7.43E-01 8.05E-01 8.05E-01 5.18E-01

2 PID1 rs2215598 2.3E+08 C T 0.07 7.84E-01 7.84E-01 2.67E-01 2.67E-01 3.26E-01 3.26E-01 8.84E-01

2 PID1 rs13010266 2.3E+08 C A 0.34 9.85E-01 9.85E-01 2.79E-01 2.79E-01 3.12E-01 3.12E-01 8.97E-01

2 PID1 rs724395 2.3E+08 G A 0.44 8.61E-01 8.61E-01 3.99E-01 3.99E-01 5.26E-01 5.26E-01 7.14E-01

2 PID1 rs764469 2.3E+08 A G 0.44 8.76E-01 8.76E-01 4.08E-01 4.08E-01 5.34E-01 5.34E-01 7.39E-01

2 PID1 rs6739369 2.3E+08 A C 0.07 4.63E-01 4.63E-01 6.57E-01 6.57E-01 7.50E-01 7.50E-01 9.37E-01

2 PID1 rs13034774 2.3E+08 C A 0.37 9.76E-01 9.76E-01 7.16E-01 7.21E-01 7.23E-01 7.23E-01 5.41E-01

2 PID1 rs31276 2.3E+08 C T 0.91 7.07E-01 7.07E-01 5.89E-01 5.89E-01 8.22E-01 8.22E-01 9.70E-01

2 PID1 rs12468638 2.3E+08 A G 0.14 2.73E-01 2.73E-01 8.31E-01 8.48E-01 6.15E-01 6.15E-01 6.33E-01

2 PID1 rs31278 2.3E+08 T C 0.93 4.37E-01 3.87E-01 2.47E-01 2.47E-01 7.70E-01 7.48E-01 3.80E-01

2 PID1 rs12105612 2.3E+08 A G 0.04 4.22E-01 4.22E-01 7.24E-01 3.63E-01 5.84E-01 8.77E-01 5.27E-02

2 PID1 rs4608504 2.3E+08 C T 0.12 7.78E-01 6.96E-01 6.82E-01 6.82E-01 6.17E-01 6.17E-01 7.40E-01

2 PID1 rs1860761 2.3E+08 A G 0.65 3.30E-03 1.49E-03 8.76E-01 8.76E-01 3.18E-02 2.97E-02 3.74E-01

2 PID1 rs1860762 2.3E+08 C T 0.75 3.03E-03 1.83E-03 9.40E-01 9.40E-01 5.56E-02 5.32E-02 3.26E-01

2 PID1 rs2396611 2.3E+08 G A 0.36 8.57E-03 2.06E-03 8.52E-01 8.52E-01 7.91E-02 5.52E-02 1.52E-01

2 PID1 rs13020025 2.3E+08 A G 0.25 2.29E-03 1.58E-03 8.19E-01 8.19E-01 4.80E-02 4.53E-02 2.97E-01

2 PID1 rs2215603 2.3E+08 C T 0.04 3.29E-01 3.29E-01 8.05E-01 2.85E-01 4.01E-01 6.14E-01 5.33E-02

2 PID1 rs2014401 2.3E+08 C T 0.11 7.40E-01 6.49E-01 9.99E-01 9.99E-01 8.25E-01 7.72E-01 3.50E-01

2 PID1 rs16825673 2.3E+08 G A 0.07 3.40E-01 3.02E-01 8.59E-01 8.59E-01 7.24E-01 7.24E-01 6.31E-01

2 PID1 rs17475974 2.3E+08 G T 0.08 3.89E-01 3.89E-01 9.13E-01 9.13E-01 3.05E-01 3.05E-01 9.77E-01

2 PID1 rs990672 2.3E+08 C T 0.24 6.75E-01 5.94E-01 3.43E-01 3.43E-01 6.77E-01 8.38E-01 1.59E-01

2 PID1 rs2109820 2.3E+08 G T 0.87 9.08E-01 9.09E-01 3.01E-01 3.01E-01 6.04E-01 6.04E-01 4.78E-01

2 PID1 rs7589888 2.3E+08 T C 0.76 6.65E-01 5.74E-01 3.22E-01 3.22E-01 6.96E-01 8.60E-01 1.40E-01

2 PID1 rs17676036 2.3E+08 T G 0.08 9.33E-01 9.33E-01 7.22E-01 8.83E-01 6.73E-01 6.73E-01 7.30E-01

2 PID1 rs10200706 2.3E+08 T C 0.51 2.07E-01 2.07E-01 1.33E-01 5.29E-02 1.51E-02 1.51E-02 6.35E-01

2 PID1 rs6436839 2.3E+08 A G 0.26 7.30E-01 7.30E-01 2.73E-01 2.73E-01 7.88E-01 7.88E-01 9.79E-01

2 PID1 rs6759815 2.3E+08 T C 0.44 6.09E-01 6.09E-01 1.28E-01 1.28E-01 5.29E-02 5.29E-02 6.08E-01

2 PID1 rs3845826 2.3E+08 C T 0.41 6.11E-01 6.11E-01 1.50E-02 1.50E-02 4.39E-02 4.39E-02 8.81E-01

2 PID1 rs2765936 2.3E+08 T C 0.94 1.31E-01 1.31E-01 5.70E-01 1.78E-01 5.15E-01 5.15E-01 4.80E-01

2 PID1 rs17614019 2.3E+08 T G 0.31 8.42E-01 8.42E-01 4.25E-01 4.25E-01 7.77E-01 7.77E-01 9.07E-01

2 PID1 rs10490031 2.3E+08 C T 0.21 6.16E-01 6.15E-01 1.06E-01 9.14E-02 1.59E-01 1.46E-01 3.13E-01

2 PID1 rs1319273 2.3E+08 C T 0.60 8.48E-02 8.48E-02 1.37E-01 1.32E-01 7.31E-01 7.19E-01 3.94E-01

2 PID1 rs975583 2.3E+08 A G 0.77 1.27E-01 9.59E-02 6.15E-01 5.21E-01 6.86E-01 3.58E-01 1.18E-02

2 PID1 rs1419950 2.3E+08 T C 0.09 3.36E-01 3.02E-01 7.10E-01 4.76E-01 4.90E-01 4.50E-01 2.97E-01

2 PID1 rs12467995 2.3E+08 T C 0.08 6.06E-01 6.06E-01 2.85E-02 2.85E-02 5.64E-01 5.64E-01 7.23E-01

2 PID1 rs12329005 2.3E+08 T C 0.39 1.50E-01 1.50E-01 3.11E-01 3.11E-01 8.80E-01 8.58E-01 3.91E-01

2 PID1 rs4973160 2.3E+08 T G 0.59 1.03E-01 5.89E-02 7.04E-01 7.04E-01 3.38E-01 3.05E-01 1.23E-01

2 PID1 rs2023499 2.3E+08 T C 0.17 8.47E-01 8.47E-01 5.70E-01 5.70E-01 5.34E-01 5.34E-01 8.80E-01

2 PID1 rs7561470 2.3E+08 G A 0.09 5.50E-01 5.17E-01 3.46E-01 1.24E-01 9.51E-01 9.35E-01 1.47E-01

2 PID1 rs6436856 2.3E+08 A C 0.09 6.81E-01 6.76E-01 3.48E-01 1.20E-01 8.94E-01 8.75E-01 1.85E-01

2 PID1 rs17676196 2.3E+08 G T 0.11 8.14E-01 9.97E-01 9.17E-02 9.17E-02 7.77E-01 7.42E-01 2.46E-01

2 PID1 rs17476328 2.3E+08 G A 0.23 1.90E-01 1.90E-01 4.97E-01 3.57E-01 8.48E-01 7.93E-01 5.28E-02

2 PID1 rs985891 2.3E+08 G A 0.36 3.24E-01 3.24E-01 1.39E-01 5.50E-02 8.19E-01 6.52E-01 8.57E-02

2 PID1 rs7597807 2.3E+08 A G 0.23 1.63E-01 1.63E-01 5.27E-01 4.03E-01 9.28E-01 9.19E-01 6.82E-02

2 PID1 rs2396616 2.3E+08 G A 0.25 1.98E-01 1.98E-01 6.41E-02 5.63E-02 1.56E-02 1.56E-02 5.60E-01

2 PID1 rs4973166 2.3E+08 G A 0.63 5.93E-02 5.79E-02 9.11E-01 9.11E-01 2.59E-01 2.60E-01 4.67E-01

2 PID1 rs4973171 2.3E+08 A G 0.52 2.05E-01 2.18E-01 4.00E-01 3.52E-01 6.86E-01 7.71E-01 1.69E-01

2 PID1 rs10804349 2.3E+08 G T 0.11 4.82E-01 3.69E-01 1.96E-01 1.96E-01 2.22E-01 2.22E-01 7.03E-01

2 PID1 rs1419958 2.3E+08 T G 0.15 9.11E-01 9.11E-01 1.07E-01 1.07E-01 3.62E-01 3.62E-01 7.34E-01

2 PID1 rs1419959 2.3E+08 G T 0.39 2.63E-01 2.47E-01 6.75E-01 6.75E-01 6.13E-01 6.10E-01 1.50E-01

2 PID1 rs12477036 2.3E+08 A G 0.13 8.49E-01 8.49E-01 6.09E-02 6.09E-02 6.27E-01 6.27E-01 9.72E-01

2 PID1 rs12694800 2.3E+08 T C 0.39 2.47E-01 2.23E-01 7.10E-01 7.10E-01 5.99E-01 5.78E-01 1.27E-01

2 PID1 rs13035964 2.3E+08 G A 0.06 2.23E-01 2.12E-01 5.70E-01 5.70E-01 1.93E-01 2.26E-01 3.54E-01

2 PID1 rs1362256 2.3E+08 C T 0.43 3.56E-01 3.04E-01 7.33E-01 7.33E-01 7.26E-01 7.17E-01 1.31E-01

2 PID1 rs13013873 2.3E+08 G A 0.34 3.89E-02 3.89E-02 7.70E-01 7.70E-01 3.74E-01 3.74E-01 5.27E-01

2 PID1 rs12475132 2.3E+08 T C 0.12 6.52E-01 6.52E-01 2.12E-01 2.12E-01 6.89E-01 6.89E-01 9.97E-01

2 PID1 rs1362260 2.3E+08 C T 0.52 7.14E-02 6.69E-02 7.80E-01 6.33E-01 4.80E-01 4.78E-01 2.39E-01

Supplementary Table 4

Results of asthma meta-analysis for previously reported genes in genome-wide association studies for lung function

Gene Marker P_random P_fixed P_random P_fixed P_random P_fixed

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

Chromosome

Position

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset

+ severe + industrial

asthma)

2 PID1 rs2159723 2.3E+08 C T 0.09 1.06E-01 1.06E-01 6.36E-01 6.36E-01 8.86E-02 8.86E-02 9.19E-01

2 PID1 rs7588090 2.3E+08 A C 0.87 7.55E-01 7.55E-01 2.07E-01 2.07E-01 8.21E-01 8.21E-01 9.95E-01

2 PID1 rs7561984 2.3E+08 C T 0.87 7.52E-01 7.52E-01 1.99E-01 1.99E-01 8.33E-01 8.33E-01 9.95E-01

2 PID1 rs1419936 2.3E+08 G A 0.51 1.97E-01 1.97E-01 6.29E-01 5.28E-01 7.75E-01 7.82E-01 4.33E-01

2 PID1 rs1362238 2.3E+08 T C 0.73 9.44E-03 9.44E-03 9.97E-01 9.54E-01 1.04E-01 1.04E-01 7.34E-01

2 PID1 rs988889 2.3E+08 G A 0.69 2.05E-02 2.05E-02 7.94E-01 7.60E-01 2.25E-01 2.25E-01 7.22E-01

2 PID1 rs6736122 2.3E+08 G A 0.31 2.59E-02 2.59E-02 7.66E-01 7.66E-01 2.55E-01 2.55E-01 7.35E-01

2 rs12478812 2.3E+08 T C 0.14 7.79E-01 7.79E-01 2.66E-01 2.66E-01 8.47E-01 8.47E-01 9.80E-01

2 PID1 rs6754456 2.3E+08 T G 0.30 4.50E-01 4.18E-01 2.30E-01 2.30E-01 2.91E-02 2.91E-02 7.05E-01

2 PID1 rs1362240 2.3E+08 C A 0.21 5.98E-01 5.98E-01 7.31E-01 7.31E-01 9.65E-01 9.65E-01 9.92E-01

2 PID1 rs883731 2.3E+08 G A 0.38 8.70E-01 7.87E-01 2.87E-01 2.87E-01 5.80E-01 5.80E-01 7.07E-01

2 PID1 rs10498234 2.3E+08 G T 0.19 5.35E-01 4.26E-01 9.36E-01 9.36E-01 7.36E-01 7.36E-01 5.71E-01

2 PID1 rs1946124 2.3E+08 G A 0.52 2.08E-01 2.08E-01 2.92E-01 2.48E-01 3.13E-02 3.13E-02 5.83E-01

2 PID1 rs1226981 2.3E+08 G T 0.27 4.97E-01 4.77E-01 1.48E-01 1.48E-01 3.27E-02 3.27E-02 6.74E-01

2 PID1 rs1226984 2.3E+08 T C 0.27 5.33E-01 5.33E-01 1.41E-01 1.41E-01 4.12E-02 4.12E-02 7.58E-01

2 PID1 rs1226989 2.3E+08 T C 0.34 9.41E-01 9.41E-01 5.76E-01 5.76E-01 1.87E-01 1.87E-01 7.71E-01

2 PID1 rs6747101 2.3E+08 C T 0.47 2.80E-01 2.80E-01 7.39E-01 7.39E-01 1.14E-01 1.14E-01 8.91E-01

2 PID1 rs1226994 2.3E+08 C T 0.32 9.96E-01 9.96E-01 6.42E-01 6.42E-01 2.30E-01 2.30E-01 7.94E-01

2 PID1 rs1226998 2.3E+08 T C 0.32 9.59E-01 9.59E-01 7.31E-01 7.31E-01 2.94E-01 2.94E-01 8.00E-01

2 PID1 rs10498235 2.3E+08 A G 0.18 6.91E-01 6.91E-01 9.69E-01 9.69E-01 9.90E-01 9.90E-01 8.31E-01

2 PID1 rs6739881 2.3E+08 T C 0.35 9.98E-01 9.39E-01 3.44E-01 3.44E-01 5.17E-01 3.29E-01 1.88E-01

2 PID1 rs1227003 2.3E+08 C T 0.93 5.33E-01 5.33E-01 1.24E-01 1.24E-01 7.24E-01 7.24E-01 4.88E-01

2 PID1 rs6724020 2.3E+08 G A 0.33 1.19E-01 1.19E-01 8.48E-02 8.48E-02 9.74E-03 9.74E-03 8.15E-01

2 PID1 rs1227005 2.3E+08 A G 0.32 4.43E-01 4.32E-01 9.91E-01 9.91E-01 1.54E-01 1.29E-01 3.71E-01

2 PID1 rs4321351 2.3E+08 A G 0.29 4.02E-01 2.84E-01 1.90E-01 1.86E-01 4.20E-01 4.19E-01 2.95E-01

2 PID1 rs1227009 2.3E+08 G A 0.17 8.61E-01 8.61E-01 6.73E-01 6.73E-01 4.82E-01 4.82E-01 8.19E-01

2 PID1 rs13026191 2.3E+08 C T 0.32 3.51E-01 2.73E-01 2.89E-01 2.43E-01 4.19E-01 4.22E-01 3.07E-01

2 PID1 rs10498237 2.3E+08 A G 0.20 3.94E-01 3.94E-01 6.39E-01 6.39E-01 8.43E-01 8.44E-01 3.61E-01

2 PID1 rs12988652 2.3E+08 G A 0.17 7.15E-01 6.44E-01 3.52E-01 3.52E-01 1.72E-01 1.72E-01 6.61E-01

2 PID1 rs11678426 2.3E+08 G A 0.07 4.59E-01 3.79E-01 5.54E-02 5.54E-02 2.75E-01 1.36E-01 1.73E-01

2 PID1 rs10498238 2.3E+08 C T 0.08 6.30E-01 6.30E-01 9.71E-01 9.71E-01 2.52E-01 2.52E-01 9.11E-01

2 PID1 rs4973184 2.3E+08 C T 0.50 2.65E-01 2.65E-01 2.51E-01 2.48E-01 3.23E-02 3.23E-02 6.03E-01

2 PID1 rs13416940 2.3E+08 G A 0.22 2.88E-01 2.88E-01 3.28E-01 3.20E-01 3.92E-02 3.92E-02 6.73E-01

2 PID1 rs1226959 2.3E+08 C A 0.93 1.70E-01 1.70E-01 4.28E-02 4.28E-02 1.20E-01 4.86E-02 2.05E-01

2 PID1 rs13418805 2.3E+08 T C 0.50 3.23E-01 3.23E-01 2.71E-01 2.71E-01 3.92E-02 3.92E-02 6.36E-01

2 PID1 rs1226950 2.3E+08 G A 0.95 5.71E-01 5.71E-01 5.36E-01 5.36E-01 4.62E-01 4.62E-01 4.92E-01

2 PID1 rs1362247 2.3E+08 T C 0.95 5.75E-01 5.75E-01 6.56E-01 6.56E-01 4.94E-01 4.94E-01 5.30E-01

2 PID1 rs12621639 2.3E+08 C A 0.51 5.35E-01 5.35E-01 8.72E-01 8.23E-01 2.58E-01 2.52E-01 4.53E-01

2 PID1 rs6715968 2.3E+08 T G 0.81 4.37E-01 3.86E-01 7.58E-01 7.58E-01 5.65E-01 5.65E-01 7.96E-01

4 FAM13A1 rs3844296 89859028 C T 0.15 8.05E-01 7.85E-01 2.80E-01 1.94E-01 6.48E-01 5.42E-01 1.08E-01

4 FAM13A1 rs2924936 89860537 G A 0.11 1.80E-01 1.49E-01 6.09E-01 6.09E-01 5.18E-02 5.18E-02 6.47E-01

4 FAM13A1 rs2860422 89863954 C T 0.11 2.91E-01 2.78E-01 5.74E-01 5.74E-01 7.33E-02 7.33E-02 7.84E-01

4 FAM13A1 rs13130 89867868 A G 0.11 1.97E-01 1.60E-01 6.69E-01 6.69E-01 5.82E-02 5.82E-02 5.78E-01

4 FAM13A1 rs3017895 89868514 A G 0.11 1.40E-01 1.14E-01 4.87E-01 4.87E-01 2.89E-02 2.89E-02 6.45E-01

4 FAM13A1 rs2972028 89874214 C T 0.27 2.24E-01 3.31E-01 1.28E-01 1.28E-01 7.57E-01 7.81E-01 2.92E-01

4 FAM13A1 rs3775391 89884216 A G 0.11 1.68E-01 1.27E-01 5.95E-01 5.95E-01 3.76E-02 3.76E-02 5.63E-01

4 FAM13A1 rs2604210 89884805 A G 0.27 2.37E-01 3.85E-01 1.38E-01 1.38E-01 8.32E-01 8.77E-01 2.23E-01

4 FAM13A1 rs6855961 89886877 C A 0.82 8.50E-01 6.79E-01 3.71E-02 3.71E-02 6.75E-01 8.04E-01 7.22E-02

4 FAM13A1 rs7657817 89887882 C T 0.17 9.85E-01 5.14E-01 5.44E-02 3.00E-02 1.38E-01 6.55E-02 1.40E-01

4 FAM13A1 rs7662156 89891828 T C 0.83 7.97E-01 8.80E-01 1.04E-01 2.85E-02 2.79E-01 1.48E-01 9.42E-02

4 FAM13A1 rs1965869 89896560 T C 0.73 5.44E-01 9.57E-01 5.21E-01 3.47E-01 9.30E-01 7.19E-01 8.19E-02

4 FAM13A1 rs1947379 89908809 A G 0.73 1.64E-01 2.50E-01 3.93E-01 3.18E-01 6.38E-01 8.99E-01 5.50E-02

4 FAM13A1 rs11097197 89911004 C T 0.03 4.75E-01 4.75E-01 7.58E-01 7.58E-01 6.25E-01 6.25E-01 5.45E-01

4 FAM13A1 rs2290782 89930872 T C 0.49 6.06E-01 6.06E-01 2.71E-01 1.55E-01 1.56E-01 1.49E-01 4.12E-01

4 FAM13A1 rs9991328 89932144 C T 0.48 7.21E-01 7.21E-01 2.78E-01 1.61E-01 1.99E-01 1.95E-01 4.27E-01

4 FAM13A1 rs7680994 89937013 G A 0.09 8.85E-01 8.85E-01 7.94E-01 7.94E-01 6.90E-01 6.90E-01 5.63E-01

4 FAM13A1 rs10516821 89947002 T C 0.07 1.00E-01 1.00E-01 3.73E-01 3.73E-01 9.58E-01 9.58E-01 8.55E-01

4 FAM13A1 rs6814344 89952905 A G 0.49 7.90E-01 7.90E-01 2.49E-01 1.61E-01 2.77E-01 2.69E-01 4.18E-01

4 FAM13A1 rs2869950 89961787 C T 0.40 3.89E-01 3.89E-01 1.20E-01 8.66E-02 2.46E-02 2.46E-02 4.91E-01

4 FAM13A1 rs2305934 89963265 T C 0.11 4.06E-01 3.35E-01 9.89E-01 9.89E-01 8.32E-01 8.34E-01 3.32E-01

4 FAM13A1 rs10021465 89969384 A G 0.33 7.35E-01 7.35E-01 1.62E-02 1.62E-02 5.79E-01 5.79E-01 5.06E-01

Supplementary Table 4

Results of asthma meta-analysis for previously reported genes in genome-wide association studies for lung function

Gene Marker P_random P_fixed P_random P_fixed P_random P_fixed

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

Chromosome

Position

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset

+ severe + industrial

asthma)

4 FAM13A1 rs1379935 89970314 G A 0.13 1.43E-02 1.43E-02 1.30E-01 1.30E-01 3.08E-02 3.08E-02 7.97E-01

4 FAM13A1 rs7660000 89970881 C T 0.29 4.85E-01 4.85E-01 2.79E-02 7.77E-03 7.45E-02 7.45E-02 6.32E-01

4 FAM13A1 rs7698655 89975099 G A 0.05 4.87E-02 4.87E-02 9.12E-01 9.12E-01 1.73E-01 1.73E-01 6.99E-01

4 FAM13A1 rs11097200 89980586 T C 0.62 3.01E-01 3.01E-01 8.74E-01 9.18E-01 4.49E-01 3.17E-01 2.76E-01

4 FAM13A1 rs11947777 89987767 T C 0.05 7.19E-02 7.19E-02 8.70E-01 8.70E-01 2.40E-01 2.40E-01 6.85E-01

4 FAM13A1 rs10461165 89989606 G A 0.23 6.46E-01 6.46E-01 5.78E-02 1.67E-02 7.86E-02 7.86E-02 7.56E-01

4 FAM13A1 rs11735482 89995269 C T 0.58 2.67E-01 2.67E-01 7.40E-01 7.40E-01 3.75E-01 3.05E-01 3.50E-01

4 FAM13A1 rs6830970 89996104 A G 0.35 5.15E-01 5.15E-01 4.41E-02 2.12E-02 5.92E-01 6.78E-01 1.12E-01

4 FAM13A1 rs2085600 89998932 G A 0.20 9.66E-01 9.82E-01 9.58E-01 8.15E-01 9.02E-01 9.02E-01 4.63E-01

4 FAM13A1 rs1979290 90008501 G T 0.14 5.92E-02 5.92E-02 1.14E-01 1.14E-01 1.32E-01 1.32E-01 5.94E-01

4 FAM13A1 rs10049947 90009616 C T 0.44 7.77E-03 7.77E-03 5.29E-01 5.29E-01 8.17E-02 3.40E-02 1.66E-01

4 FAM13A1 rs12649368 90010177 T C 0.59 1.76E-01 1.76E-01 7.45E-01 7.45E-01 3.62E-01 2.57E-01 2.52E-01

4 FAM13A1 rs10516823 90016661 G A 0.10 4.65E-02 4.40E-02 2.60E-01 1.93E-01 1.77E-01 2.87E-01 6.57E-02

4 FAM13A1 rs17816002 90017977 C A 0.34 2.70E-02 2.70E-02 8.14E-01 7.62E-01 5.47E-02 5.47E-02 6.07E-01

4 FAM13A1 rs2609255 90030218 G T 0.79 8.07E-02 8.07E-02 2.38E-01 2.38E-01 5.76E-02 5.76E-02 9.15E-01

4 FAM13A1 rs13109149 90050358 C T 0.18 4.01E-01 4.01E-01 6.02E-01 6.02E-01 4.24E-01 4.24E-01 7.77E-01

4 FAM13A1 rs10019681 90051555 C T 0.24 8.96E-02 7.03E-02 6.69E-01 6.69E-01 8.66E-01 7.66E-01 9.03E-02

4 FAM13A1 rs1458562 90072621 C T 0.58 9.32E-01 7.84E-01 5.44E-01 5.01E-01 2.19E-01 1.49E-01 1.25E-01

4 FAM13A1 rs1903009 90075300 C T 0.21 2.58E-01 2.35E-01 8.07E-01 7.66E-01 9.90E-01 8.73E-01 2.55E-02

4 FAM13A1 rs2446309 90076175 A G 0.21 2.58E-01 2.31E-01 7.87E-01 7.39E-01 9.78E-01 8.46E-01 2.84E-02

4 FAM13A1 rs987314 90081192 G A 0.38 9.99E-02 9.99E-02 7.07E-01 7.07E-01 4.73E-01 4.73E-01 4.75E-01

4 FAM13A1 rs2869967 90088355 T C 0.40 7.11E-01 7.32E-01 2.37E-01 2.37E-01 4.38E-01 4.36E-01 3.30E-01

4 FAM13A1 rs7671167 90103002 C T 0.50 8.73E-01 8.55E-01 4.62E-01 4.62E-01 4.52E-01 4.52E-01 5.12E-01

4 FAM13A1 rs1903003 90105320 C T 0.54 9.73E-01 8.90E-01 9.71E-01 9.71E-01 6.43E-01 6.18E-01 3.73E-01

4 FAM13A1 rs1921679 90109807 T C 0.67 1.84E-01 1.26E-01 9.23E-01 9.23E-01 6.43E-01 6.43E-01 6.05E-01

4 rs16996143 90116382 A G 0.67 2.38E-01 1.79E-01 8.07E-01 8.07E-01 8.08E-01 8.08E-01 6.64E-01

4 FAM13A1 rs16996144 90116545 A G 0.52 1.50E-01 1.40E-01 5.56E-01 5.56E-01 8.39E-02 8.39E-02 8.33E-01

4 FAM13A1 rs11737182 90117499 T C 0.67 2.19E-01 1.65E-01 8.30E-01 8.30E-01 7.13E-01 7.13E-01 7.00E-01

4 FAM13A1 rs1921681 90123147 T C 0.53 2.07E-01 1.76E-01 5.83E-01 5.83E-01 1.22E-01 1.22E-01 8.28E-01

4 FAM13A1 rs7697075 90127331 A G 0.67 2.08E-01 1.60E-01 8.23E-01 8.23E-01 6.92E-01 6.92E-01 7.14E-01

4 FAM13A1 rs10007590 90136158 A G 0.18 8.95E-01 8.95E-01 1.78E-01 1.78E-01 1.22E-01 6.87E-02 2.52E-01

4 FAM13A1 rs10516827 90137926 C T 0.12 2.82E-01 4.11E-01 1.21E-01 1.02E-01 8.55E-01 8.72E-01 9.13E-03

4 FAM13A1 rs10516826 90137991 C T 0.18 2.63E-02 2.63E-02 3.05E-01 3.05E-01 7.01E-02 7.01E-02 7.44E-01

4 FAM13A1 rs10516825 90139105 C A 0.12 2.84E-01 4.07E-01 1.22E-01 1.11E-01 8.57E-01 8.78E-01 1.19E-02

4 FAM13A1 rs1921684 90141166 T C 0.78 2.38E-02 2.12E-02 1.31E-01 1.27E-01 7.77E-01 6.10E-01 8.03E-02

4 FAM13A1 rs6849143 90147512 T C 0.60 8.30E-01 8.30E-01 1.56E-01 1.56E-01 1.81E-01 1.81E-01 7.53E-01

4 FAM13A1 rs6824116 90147866 C T 0.10 5.63E-01 7.65E-01 2.13E-01 2.00E-01 5.51E-01 4.69E-01 1.71E-02

4 FAM13A1 rs17014898 90149157 C A 0.04 3.46E-02 3.46E-02 8.20E-01 8.20E-01 2.25E-02 2.25E-02 7.20E-01

4 FAM13A1 rs1398942 90149415 G A 0.46 6.77E-01 6.77E-01 4.58E-01 4.58E-01 7.54E-01 7.54E-01 8.24E-01

4 FAM13A1 rs12505696 90150093 C T 0.36 5.29E-01 5.29E-01 9.96E-01 9.96E-01 9.45E-01 9.45E-01 8.58E-01

4 FAM13A1 rs2670620 90153229 G A 0.10 3.30E-01 3.11E-01 7.06E-01 7.06E-01 5.30E-01 5.30E-01 6.82E-01

4 FAM13A1 rs12508524 90157385 G A 0.28 4.73E-01 3.54E-01 5.87E-01 6.02E-01 4.30E-01 3.80E-01 1.17E-01

4 FAM13A1 rs1708661 90157587 C T 0.43 2.40E-02 2.14E-02 1.95E-01 1.85E-01 9.92E-01 9.93E-01 1.77E-02

4 FAM13A1 rs1795722 90161886 C T 0.80 4.58E-02 3.62E-02 5.39E-02 3.96E-02 9.21E-01 9.78E-01 3.44E-02

4 rs6532094 90165757 G A 0.61 4.67E-02 2.57E-02 1.29E-01 1.29E-01 9.00E-01 8.25E-01 1.60E-01

4 FAM13A1 rs1708670 90166277 G A 0.69 1.39E-01 7.31E-02 4.59E-01 4.59E-01 5.82E-01 5.69E-01 3.77E-01

4 FAM13A1 rs1343921 90166485 T C 0.51 1.15E-01 8.48E-02 1.09E-01 9.27E-02 9.55E-01 9.48E-01 2.47E-01

4 FAM13A1 rs1533291 90183479 C T 0.61 4.42E-02 2.31E-02 1.07E-01 1.07E-01 9.00E-01 8.29E-01 1.59E-01

4 FAM13A1 rs2670626 90186315 C T 0.61 3.95E-02 2.12E-02 1.35E-01 1.35E-01 8.52E-01 7.77E-01 1.51E-01

4 FAM13A1 rs2704592 90188600 T C 0.10 3.41E-01 3.38E-01 6.99E-01 6.99E-01 5.60E-01 5.60E-01 7.24E-01

4 FAM13A1 rs1708676 90193577 A C 0.04 3.57E-01 3.57E-01 3.13E-03 3.13E-03 7.51E-02 4.39E-02 1.92E-01

4 FAM13A1 rs6826407 90194056 T C 0.33 9.92E-01 9.92E-01 6.24E-02 6.24E-02 1.55E-01 1.55E-01 9.52E-01

4 FAM13A1 rs8180333 90204514 C T 0.90 3.23E-01 3.23E-01 7.54E-01 7.54E-01 5.49E-01 5.49E-01 7.48E-01

4 FAM13A1 rs6857969 90205349 G A 0.33 9.37E-01 9.37E-01 7.14E-02 7.14E-02 1.66E-01 1.66E-01 9.47E-01

4 FAM13A1 rs6532102 90209178 G A 0.33 9.79E-01 9.79E-01 5.93E-02 5.93E-02 1.33E-01 1.33E-01 9.46E-01

4 FAM13A1 rs9790655 90211370 C T 0.08 1.67E-01 1.67E-01 1.45E-01 1.45E-01 8.33E-01 8.33E-01 7.35E-01

4 FAM13A1 rs938265 90212689 T C 0.90 3.66E-01 3.66E-01 7.78E-01 7.78E-01 4.97E-01 4.97E-01 7.59E-01

4 FAM13A1 rs874147 90217281 C A 0.33 9.64E-01 9.64E-01 5.64E-02 5.64E-02 1.33E-01 1.33E-01 9.56E-01

4 FAM13A1 rs756175 90218064 A G 0.71 5.95E-03 5.95E-03 7.55E-01 7.55E-01 5.21E-02 5.21E-02 8.54E-01

4 INTS12 rs1982346 1.07E+08 A G 0.08 7.35E-01 7.35E-01 6.88E-01 6.88E-01 6.73E-01 6.73E-01 9.31E-01

4 INTS12 rs4235415 1.07E+08 A G 0.14 3.87E-01 3.75E-01 3.56E-01 3.56E-01 2.33E-01 2.33E-01 5.83E-01

Supplementary Table 4

Results of asthma meta-analysis for previously reported genes in genome-wide association studies for lung function

Gene Marker P_random P_fixed P_random P_fixed P_random P_fixed

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

Chromosome

Position

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset

+ severe + industrial

asthma)

4 INTS12 rs4699193 1.07E+08 T C 0.08 9.69E-01 9.69E-01 8.06E-01 8.06E-01 8.79E-01 8.79E-01 8.92E-01

4 INTS12 rs6820671 1.07E+08 A G 0.15 4.85E-01 4.37E-01 6.92E-01 7.33E-01 4.26E-01 3.84E-01 1.86E-01

4 INTS12 rs17262764 1.07E+08 G A 0.23 5.80E-01 5.66E-01 8.93E-01 7.37E-01 8.49E-01 8.62E-01 1.49E-01

4 GSTCD rs11727735 1.07E+08 A G 0.07 2.47E-01 1.86E-01 7.78E-01 7.78E-01 2.13E-01 2.13E-01 5.16E-01

4 GSTCD rs12511885 1.07E+08 G A 0.15 5.22E-01 4.70E-01 7.87E-01 8.22E-01 4.71E-01 4.26E-01 1.78E-01

4 GSTCD rs7685231 1.07E+08 C T 0.84 8.19E-01 8.19E-01 2.43E-01 2.43E-01 5.22E-01 5.22E-01 8.98E-01

4 GSTCD rs4698951 1.07E+08 T C 0.08 9.17E-01 9.17E-01 9.86E-01 9.86E-01 7.13E-01 7.13E-01 9.39E-01

4 GSTCD rs2866781 1.07E+08 T C 0.92 8.00E-01 8.00E-01 3.08E-01 3.08E-01 3.04E-01 3.04E-01 9.80E-01

4 GSTCD rs10516526 1.07E+08 A G 0.07 2.57E-01 1.99E-01 7.78E-01 7.78E-01 2.26E-01 2.26E-01 5.63E-01

4 GSTCD rs2544401 1.07E+08 T C 0.91 9.66E-01 9.66E-01 4.08E-01 4.08E-01 6.72E-01 6.72E-01 9.75E-01

4 GSTCD rs2553449 1.07E+08 T C 0.61 9.53E-01 8.30E-01 5.36E-01 3.84E-01 6.17E-01 7.73E-01 4.73E-02

4 rs2553468 1.07E+08 C A 0.77 9.22E-01 9.22E-01 8.50E-01 8.07E-01 8.49E-01 8.13E-01 2.33E-01

4 GSTCD rs2553463 1.07E+08 G A 0.84 3.45E-01 3.45E-01 8.54E-01 9.86E-01 5.09E-01 5.09E-01 5.66E-01

4 GSTCD rs17036254 1.07E+08 G A 0.07 7.42E-01 7.42E-01 7.21E-01 7.21E-01 6.67E-01 6.67E-01 9.39E-01

4 GSTCD rs2553458 1.07E+08 G A 0.77 6.32E-01 6.32E-01 7.81E-01 8.45E-01 8.12E-01 8.15E-01 1.66E-01

4 GSTCD rs11731417 1.07E+08 A G 0.07 2.47E-01 1.99E-01 7.30E-01 7.30E-01 2.07E-01 2.07E-01 5.85E-01

4 GSTCD rs2216515 1.07E+08 C T 0.84 2.85E-01 2.85E-01 8.65E-01 9.44E-01 3.84E-01 3.84E-01 5.92E-01

4 GSTCD rs2553456 1.07E+08 T C 0.84 3.11E-01 3.11E-01 7.45E-01 8.53E-01 3.64E-01 3.64E-01 6.37E-01

4 NPNT rs2553435 1.07E+08 A G 0.05 5.50E-01 4.28E-01 2.77E-01 2.77E-01 2.50E-01 2.40E-01 4.21E-01

4 NPNT rs2544408 1.07E+08 T C 0.83 8.59E-01 8.59E-01 2.85E-01 2.85E-01 5.85E-01 5.85E-01 9.78E-01

4 NPNT rs2553453 1.07E+08 A G 0.84 9.20E-01 9.20E-01 2.11E-01 2.11E-01 5.33E-01 5.33E-01 9.81E-01

4 NPNT rs11933466 1.07E+08 G A 0.24 4.98E-01 4.90E-01 9.92E-01 6.92E-01 6.81E-01 6.73E-01 4.00E-01

4 NPNT rs10470990 1.07E+08 C T 0.05 1.27E-02 1.27E-02 6.00E-01 6.00E-01 1.02E-01 1.02E-01 6.30E-01

4 NPNT rs4600917 1.07E+08 T C 0.40 9.61E-02 6.87E-02 4.81E-01 3.66E-01 4.66E-01 3.79E-01 9.11E-02

4 rs10000995 1.07E+08 T C 0.05 3.31E-02 3.12E-02 8.07E-01 8.07E-01 2.26E-01 2.26E-01 7.60E-01

4 NPNT rs4340795 1.07E+08 A G 0.91 2.94E-02 2.94E-02 7.36E-01 7.36E-01 2.82E-01 2.82E-01 9.01E-01

4 rs6843517 1.07E+08 G A 0.92 1.35E-02 1.35E-02 7.73E-01 6.06E-01 3.34E-01 3.34E-01 6.38E-01

4 NPNT rs7677557 1.07E+08 T C 0.14 4.24E-01 4.24E-01 1.30E-01 1.30E-01 9.34E-02 9.33E-02 4.08E-01

4 NPNT rs6855132 1.07E+08 A G 0.08 3.32E-03 3.32E-03 8.98E-01 7.44E-01 2.26E-01 2.26E-01 5.89E-01

4 rs4597836 1.07E+08 A C 0.36 2.08E-01 2.08E-01 7.23E-01 7.23E-01 2.18E-01 2.18E-01 7.81E-01

4 NPNT rs6817700 1.07E+08 A G 0.56 1.24E-02 1.24E-02 8.65E-01 8.65E-01 7.54E-02 7.54E-02 7.79E-01

4 NPNT rs17036413 1.07E+08 C T 0.06 9.53E-01 7.75E-01 1.85E-01 1.85E-01 1.55E-01 9.56E-02 7.67E-02

4 NPNT rs7691244 1.07E+08 A G 0.39 3.96E-01 3.96E-01 6.04E-01 3.98E-01 5.76E-01 5.76E-01 4.79E-01

4 NPNT rs13125117 1.07E+08 T C 0.46 7.90E-01 7.93E-01 3.17E-01 3.08E-01 6.01E-01 5.37E-01 2.82E-01

4 NPNT rs2156507 1.07E+08 T C 0.09 1.95E-01 1.95E-01 9.99E-01 7.92E-01 3.89E-01 3.89E-01 5.63E-01

4 NPNT rs4367177 1.07E+08 T C 0.88 3.08E-01 3.08E-01 2.86E-01 2.86E-01 6.84E-01 6.84E-01 7.39E-01

4 NPNT rs17036476 1.07E+08 A G 0.42 1.92E-01 1.42E-01 6.60E-01 6.33E-01 5.83E-01 5.15E-01 1.58E-01

4 NPNT rs11730681 1.07E+08 G A 0.43 3.90E-01 3.45E-01 4.26E-01 4.26E-01 4.28E-01 3.41E-01 2.63E-01

4 NPNT rs994370 1.07E+08 C T 0.50 1.74E-01 1.03E-01 2.68E-01 2.68E-01 3.42E-01 2.53E-01 1.15E-01

4 rs6537286 1.46E+08 A G 0.39 1.56E-01 7.88E-02 1.72E-02 1.72E-02 9.40E-01 9.78E-01 2.98E-02

4 HHIP rs1394999 1.46E+08 G T 0.60 4.42E-01 4.11E-01 2.33E-02 2.33E-02 5.17E-01 1.24E-01 6.77E-03

4 HHIP rs4362772 1.46E+08 C A 0.61 3.43E-01 2.94E-01 1.68E-02 1.68E-02 6.12E-01 1.63E-01 5.38E-03

4 HHIP rs749316 1.46E+08 A G 0.28 4.86E-01 4.86E-01 6.87E-01 6.14E-01 8.98E-01 8.98E-01 5.17E-01

4 HHIP rs6817612 1.46E+08 A G 0.69 4.33E-01 4.33E-01 7.78E-02 7.78E-02 3.12E-01 3.12E-01 5.19E-01

4 HHIP rs11735110 1.46E+08 T C 0.69 4.12E-01 4.12E-01 8.11E-02 8.11E-02 3.34E-01 3.34E-01 5.39E-01

4 HHIP rs7684769 1.46E+08 T C 0.69 4.97E-01 4.97E-01 8.37E-02 8.37E-02 4.22E-01 4.22E-01 6.75E-01

4 HHIP rs12641251 1.46E+08 G A 0.69 5.07E-01 5.07E-01 8.28E-02 7.94E-02 4.10E-01 4.10E-01 6.75E-01

4 HHIP rs6827794 1.46E+08 T C 0.80 9.60E-01 8.22E-01 4.20E-01 2.48E-01 5.73E-01 5.49E-01 3.05E-01

4 HHIP rs1512282 1.46E+08 A G 0.40 5.97E-01 5.97E-01 5.23E-01 3.84E-01 2.95E-01 2.95E-01 6.36E-01

4 HHIP rs1032295 1.46E+08 T G 0.40 7.21E-01 7.21E-01 7.35E-01 7.36E-01 4.85E-01 4.85E-01 6.27E-01

4 HHIP rs1512285 1.46E+08 A G 0.56 6.68E-01 6.68E-01 6.72E-01 3.96E-01 7.90E-01 7.90E-01 6.03E-01

4 HHIP rs6845536 1.46E+08 C T 0.56 6.81E-01 6.81E-01 7.50E-01 4.00E-01 7.84E-01 7.88E-01 3.48E-01

4 HHIP rs720485 1.46E+08 A C 0.42 5.11E-01 5.11E-01 8.55E-01 7.43E-01 3.05E-01 2.90E-01 2.54E-01

4 HHIP rs1828591 1.46E+08 A G 0.42 4.32E-01 4.32E-01 8.70E-01 7.58E-01 2.57E-01 2.42E-01 2.96E-01

4 HHIP rs13118928 1.46E+08 A G 0.42 3.88E-01 3.88E-01 8.56E-01 7.20E-01 2.30E-01 2.01E-01 2.33E-01

4 HHIP rs1512288 1.46E+08 G A 0.43 5.35E-01 5.35E-01 9.53E-01 8.40E-01 3.53E-01 3.34E-01 3.04E-01

4 HHIP rs6817273 1.46E+08 T C 0.42 5.08E-01 5.08E-01 9.80E-01 8.98E-01 3.60E-01 3.40E-01 2.98E-01

4 HHIP rs2175586 1.46E+08 A G 0.94 3.71E-01 3.71E-01 8.49E-01 8.49E-01 4.44E-01 4.44E-01 9.98E-01

4 HHIP rs13136959 1.46E+08 T C 0.04 8.35E-01 8.52E-01 5.65E-01 5.65E-01 4.97E-01 4.97E-01 4.68E-01

4 HHIP rs6852830 1.46E+08 C A 0.15 2.96E-01 2.96E-01 1.25E-01 1.25E-01 8.41E-02 8.41E-02 9.47E-01

Supplementary Table 4

Results of asthma meta-analysis for previously reported genes in genome-wide association studies for lung function

Gene Marker P_random P_fixed P_random P_fixed P_random P_fixed

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

Chromosome

Position

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset

+ severe + industrial

asthma)

4 HHIP rs1996020 1.46E+08 A C 0.15 2.22E-01 2.22E-01 1.49E-01 1.49E-01 5.40E-02 5.40E-02 9.65E-01

4 HHIP rs7670758 1.46E+08 A G 0.58 6.73E-01 6.73E-01 6.54E-01 3.78E-01 7.53E-01 7.53E-01 4.71E-01

4 HHIP rs7677662 1.46E+08 A G 0.11 3.75E-01 3.75E-01 7.01E-01 8.22E-01 3.56E-01 3.56E-01 7.07E-01

4 HHIP rs2353397 1.46E+08 C T 0.55 5.90E-01 5.40E-01 8.50E-01 8.50E-01 4.78E-01 4.78E-01 5.39E-01

4 HHIP rs4835180 1.46E+08 A G 0.46 2.97E-01 3.12E-01 4.15E-01 1.94E-01 6.19E-01 7.65E-01 1.51E-01

4 HHIP rs2035901 1.46E+08 A G 0.48 3.68E-01 4.54E-01 2.42E-01 2.42E-01 9.34E-01 8.79E-01 1.87E-01

4 HHIP rs2883154 1.46E+08 C T 0.09 2.54E-01 2.08E-01 4.62E-01 4.62E-01 2.01E-01 1.90E-01 3.68E-01

4 HHIP rs11947381 1.46E+08 T C 0.52 3.70E-01 5.16E-01 4.06E-01 4.06E-01 6.83E-01 9.60E-01 3.14E-02

4 HHIP rs17776795 1.46E+08 A G 0.43 1.08E-01 1.39E-01 2.26E-01 2.26E-01 2.19E-01 3.53E-01 2.98E-02

4 HHIP rs2575570 1.46E+08 T G 0.93 1.51E-01 1.51E-01 3.58E-01 3.58E-01 9.95E-02 9.95E-02 5.75E-01

4 HHIP rs1398244 1.46E+08 C T 0.38 2.21E-01 2.85E-01 5.82E-01 5.82E-01 3.00E-01 4.62E-01 1.10E-01

4 HHIP rs6845999 1.46E+08 C T 0.43 1.64E-01 2.15E-01 2.15E-01 2.15E-01 3.14E-01 4.68E-01 5.72E-02

4 HHIP rs1812175 1.46E+08 A G 0.83 8.77E-01 8.77E-01 2.21E-01 2.21E-01 9.43E-01 9.43E-01 6.05E-01

4 HHIP rs2220514 1.46E+08 G A 0.43 9.25E-02 1.05E-01 3.14E-01 2.89E-01 2.11E-01 3.33E-01 6.05E-02

4 HHIP rs2306924 1.46E+08 A G 0.49 6.37E-02 5.37E-02 5.68E-01 4.49E-01 1.35E-01 1.36E-01 1.76E-01

4 HHIP rs6826476 1.46E+08 C T 0.30 1.44E-01 1.44E-01 9.07E-01 8.71E-01 1.62E-01 1.62E-01 5.13E-01

4 HHIP rs6537307 1.46E+08 A G 0.49 3.50E-01 3.99E-01 5.52E-01 5.49E-01 4.40E-01 4.49E-01 3.92E-01

4 HHIP rs2639583 1.46E+08 T C 0.14 9.57E-01 9.57E-01 6.01E-01 6.15E-01 8.60E-01 8.56E-01 4.39E-01

4 HHIP rs2575580 1.46E+08 A G 0.14 9.97E-01 9.97E-01 6.56E-01 6.98E-01 8.06E-01 8.01E-01 4.44E-01

4 HHIP rs17721701 1.46E+08 T C 0.55 1.46E-01 1.46E-01 9.69E-01 9.45E-01 1.53E-01 1.53E-01 6.71E-01

4 HHIP rs3733423 1.46E+08 G T 0.57 1.84E-01 1.84E-01 8.50E-01 8.12E-01 3.14E-01 3.14E-01 4.81E-01

4 HHIP rs11100863 1.46E+08 A G 0.04 3.56E-02 3.56E-02 1.69E-01 1.18E-01 2.14E-01

4 HHIP rs6537310 1.46E+08 T C 0.57 2.78E-01 2.78E-01 9.57E-01 9.45E-01 2.34E-01 2.34E-01 4.84E-01

4 HHIP rs6854783 1.46E+08 G A 0.57 3.77E-01 3.77E-01 9.89E-01 9.58E-01 3.46E-01 3.46E-01 4.51E-01

4 HHIP rs6843518 1.46E+08 T C 0.57 3.01E-01 3.01E-01 9.40E-01 9.44E-01 2.66E-01 2.66E-01 4.71E-01

4 HHIP rs11944404 1.46E+08 T C 0.48 9.35E-01 9.35E-01 6.93E-01 3.39E-01 8.03E-01 7.22E-01 2.68E-01

4 HHIP rs2353934 1.46E+08 C T 0.10 3.16E-01 2.85E-01 8.98E-01 7.97E-01 4.05E-01 3.59E-01 2.93E-01

4 HHIP rs12647866 1.46E+08 C T 0.88 9.74E-01 9.97E-01 5.17E-01 5.17E-01 8.37E-01 8.37E-01 5.77E-01

4 HHIP rs11930222 1.46E+08 T C 0.12 7.38E-01 7.38E-01 5.12E-01 5.12E-01 6.75E-01 6.75E-01 7.20E-01

4 HHIP rs12651029 1.46E+08 G A 0.29 1.30E-01 1.30E-01 7.97E-01 7.59E-01 4.50E-01 4.90E-01 2.43E-01

4 HHIP rs13102609 1.46E+08 G T 0.08 8.14E-01 8.14E-01 6.60E-01 6.60E-01 8.73E-01 8.73E-01 9.42E-01

5 HTR4 rs9325098 1.48E+08 G T 0.27 2.56E-01 2.56E-01 1.58E-01 1.58E-01 4.31E-02 4.31E-02 9.10E-01

5 HTR4 rs7727161 1.48E+08 G T 0.27 2.87E-01 2.87E-01 1.79E-01 1.79E-01 4.50E-02 4.50E-02 9.04E-01

5 HTR4 rs17639006 1.48E+08 A C 0.12 4.92E-01 4.92E-01 5.39E-01 4.79E-01 3.83E-01 3.69E-01 2.22E-01

5 HTR4 rs3995090 1.48E+08 A C 0.41 4.61E-02 4.61E-02 4.37E-01 4.37E-01 2.94E-01 2.94E-01 5.10E-01

5 HTR4 rs4597955 1.48E+08 G A 0.58 1.05E-02 3.55E-03 6.12E-01 6.12E-01 2.41E-02 1.42E-02 1.34E-01

5 HTR4 rs7702840 1.48E+08 T G 0.05 3.17E-01 3.17E-01 1.32E-01 1.32E-01 5.04E-02 5.04E-02 9.60E-01

5 HTR4 rs7723153 1.48E+08 G A 0.41 8.48E-01 6.89E-01 2.05E-01 2.05E-01 6.92E-01 6.92E-01 6.26E-01

5 HTR4 rs1368383 1.48E+08 C T 0.05 2.87E-01 2.87E-01 1.55E-01 1.55E-01 4.61E-02 4.61E-02 9.35E-01

5 HTR4 rs1368384 1.48E+08 C T 0.76 3.39E-01 3.39E-01 6.04E-01 6.04E-01 7.35E-01 7.35E-01 8.68E-01

5 HTR4 rs1368386 1.48E+08 G T 0.42 8.32E-01 6.63E-01 2.18E-01 2.18E-01 7.67E-01 7.67E-01 6.44E-01

5 HTR4 rs1368387 1.48E+08 G A 0.05 3.03E-01 3.03E-01 1.55E-01 1.55E-01 4.54E-02 4.54E-02 9.11E-01

5 HTR4 rs7725785 1.48E+08 C A 0.06 7.77E-01 6.65E-01 3.04E-01 3.04E-01 5.00E-01 5.00E-01 7.59E-01

5 rs2277049 1.48E+08 G T 0.07 5.93E-01 6.45E-01 1.81E-01 1.81E-01 1.25E-01 1.25E-01 8.08E-01

5 HTR4 rs12152801 1.48E+08 T G 0.34 8.12E-01 7.22E-01 2.60E-01 2.60E-01 7.57E-01 7.57E-01 7.90E-01

5 HTR4 rs13359903 1.48E+08 T C 0.11 9.73E-01 9.11E-01 8.03E-01 8.03E-01 6.42E-01 6.27E-01 4.00E-01

5 HTR4 rs2278392 1.48E+08 C T 0.10 8.47E-01 7.95E-01 8.55E-01 8.55E-01 9.74E-01 9.65E-01 4.11E-01

5 HTR4 rs1345697 1.48E+08 T C 0.49 5.68E-01 4.73E-01 2.88E-01 2.88E-01 7.87E-01 7.87E-01 6.13E-01

5 HTR4 rs17720733 1.48E+08 A C 0.09 9.73E-01 9.80E-01 6.40E-01 6.40E-01 9.96E-01 9.96E-01 6.08E-01

5 HTR4 rs4599527 1.48E+08 T C 0.16 4.79E-01 4.79E-01 9.14E-01 9.06E-01 4.48E-01 4.48E-01 5.74E-01

5 HTR4 rs17108435 1.48E+08 T C 0.13 3.78E-01 3.78E-01 9.86E-01 9.89E-01 4.20E-01 4.20E-01 7.45E-01

5 HTR4 rs4336354 1.48E+08 T C 0.34 8.77E-01 8.56E-01 2.60E-01 2.60E-01 7.22E-01 7.22E-01 8.24E-01

5 HTR4 rs6580557 1.48E+08 A G 0.13 4.21E-01 4.21E-01 9.51E-01 9.73E-01 5.02E-01 5.02E-01 6.91E-01

5 HTR4 rs867522 1.48E+08 C T 0.10 6.86E-01 6.86E-01 4.97E-01 4.97E-01 8.10E-01 8.10E-01 6.67E-01

5 HTR4 rs1833710 1.48E+08 A G 0.13 1.39E-01 1.39E-01 9.04E-01 9.68E-01 7.70E-01 7.70E-01 7.55E-01

5 HTR4 rs4280857 1.48E+08 G A 0.04 2.71E-01 2.71E-01 1.26E-01 1.26E-01 6.67E-01

5 HTR4 rs2964276 1.48E+08 C T 0.35 2.58E-01 2.58E-01 1.23E-01 1.23E-01 8.34E-01 8.34E-01 9.67E-01

5 HTR4 rs7711800 1.48E+08 C T 0.48 9.79E-01 9.79E-01 1.44E-01 1.44E-01 9.08E-01 9.08E-01 8.18E-01

5 HTR4 rs1011427 1.48E+08 C T 0.08 8.84E-01 9.34E-01 8.11E-01 6.96E-01 9.16E-01 9.13E-01 1.95E-01

5 HTR4 rs13182913 1.48E+08 T C 0.34 3.03E-01 3.03E-01 1.10E-01 1.10E-01 9.90E-01 9.90E-01 9.21E-01

5 HTR4 rs2068190 1.48E+08 G A 0.44 3.99E-01 3.99E-01 2.99E-01 2.99E-01 9.57E-01 9.57E-01 9.82E-01

Supplementary Table 4

Results of asthma meta-analysis for previously reported genes in genome-wide association studies for lung function

Gene Marker P_random P_fixed P_random P_fixed P_random P_fixed

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

Chromosome

Position

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset

+ severe + industrial

asthma)

5 HTR4 rs17706942 1.48E+08 T C 0.04 1.65E-01 1.65E-01 8.62E-01 8.62E-01 2.32E-01 2.32E-01 8.98E-01

5 HTR4 rs13157587 1.48E+08 T G 0.07 5.47E-01 6.08E-01 8.61E-01 8.61E-01 8.01E-01 8.01E-01 5.74E-01

5 HTR4 rs9686886 1.48E+08 G A 0.29 3.97E-01 3.97E-01 2.90E-02 2.15E-02 7.58E-01 7.58E-01 7.17E-01

5 HTR4 rs5028114 1.48E+08 T C 0.58 7.35E-01 7.35E-01 6.58E-01 6.58E-01 8.59E-01 8.59E-01 9.90E-01

5 HTR4 rs6865654 1.48E+08 C T 0.37 5.55E-01 5.55E-01 2.24E-01 2.24E-01 8.36E-01 8.36E-01 9.87E-01

5 HTR4 rs1972644 1.48E+08 C T 0.41 9.57E-01 9.57E-01 7.55E-02 7.55E-02 2.94E-01 2.94E-01 9.73E-01

5 HTR4 rs1833704 1.48E+08 A G 0.18 1.57E-01 1.41E-01 9.00E-01 9.00E-01 8.48E-02 8.48E-02 7.88E-01

5 HTR4 rs7713886 1.48E+08 C T 0.80 8.24E-01 7.06E-01 8.75E-01 8.75E-01 8.23E-01 6.96E-01 2.64E-01

5 HTR4 rs888961 1.48E+08 C A 0.24 9.71E-02 9.71E-02 7.21E-02 7.21E-02 5.53E-01 5.53E-01 8.14E-01

5 HTR4 rs1820076 1.48E+08 C T 0.40 8.27E-01 8.27E-01 8.19E-02 8.19E-02 3.76E-01 3.76E-01 9.65E-01

5 HTR4 rs1820074 1.48E+08 T C 0.43 6.08E-01 6.08E-01 1.80E-02 1.80E-02 4.41E-01 4.41E-01 8.23E-01

5 HTR4 rs10476898 1.48E+08 T C 0.41 8.75E-01 8.75E-01 9.10E-02 9.10E-02 3.67E-01 3.67E-01 9.67E-01

5 HTR4 rs4425495 1.48E+08 T C 0.45 9.98E-01 9.98E-01 8.42E-02 8.42E-02 3.62E-01 3.62E-01 9.37E-01

5 HTR4 rs3923307 1.48E+08 T C 0.39 3.33E-01 3.33E-01 5.21E-02 5.21E-02 7.65E-01 7.65E-01 9.39E-01

5 HTR4 rs13177640 1.48E+08 C T 0.38 3.95E-01 3.95E-01 8.61E-02 8.61E-02 7.69E-01 7.69E-01 9.73E-01

5 HTR4 rs9325113 1.48E+08 C T 0.16 6.76E-01 6.76E-01 7.06E-01 7.06E-01 3.93E-01 3.93E-01 9.96E-01

5 HTR4 rs6580565 1.48E+08 T C 0.44 6.32E-01 6.32E-01 8.82E-02 8.82E-02 4.90E-01 4.90E-01 9.52E-01

5 HTR4 rs6580567 1.48E+08 T C 0.43 4.44E-01 4.44E-01 2.03E-02 2.03E-02 4.39E-01 4.39E-01 8.62E-01

5 HTR4 rs2400642 1.48E+08 A G 0.23 2.79E-01 2.79E-01 4.49E-01 4.49E-01 9.30E-01 9.30E-01 9.36E-01

5 HTR4 rs17777882 1.48E+08 G A 0.08 1.00E+00 9.92E-01 3.30E-01 3.30E-01 7.12E-01 7.12E-01 6.80E-01

5 ADAM19 rs2161396 1.57E+08 A C 0.34 1.27E-01 1.27E-01 8.00E-01 8.92E-01 5.56E-01 5.56E-01 7.37E-01

5 ADAM19 rs10463021 1.57E+08 T C 0.15 9.06E-01 9.06E-01 3.90E-01 2.34E-01 1.39E-01 1.39E-01 4.84E-01

5 ADAM19 rs7714353 1.57E+08 T C 0.58 8.44E-01 8.44E-01 2.75E-01 2.71E-01 4.76E-01 4.76E-01 7.97E-01

5 ADAM19 rs11750519 1.57E+08 C T 0.14 7.19E-02 7.19E-02 3.33E-01 3.33E-01 2.37E-02 2.37E-02 7.45E-01

5 ADAM19 rs11951889 1.57E+08 C T 0.28 6.95E-01 8.11E-01 6.48E-01 7.32E-01 8.25E-01 7.34E-01 1.38E-01

5 ADAM19 rs4704863 1.57E+08 C T 0.52 6.22E-01 4.37E-01 1.70E-01 6.83E-02 2.21E-01 1.06E-01 8.82E-02

5 ADAM19 rs1559144 1.57E+08 G A 0.59 7.61E-01 7.61E-01 2.99E-01 2.99E-01 6.58E-01 6.58E-01 7.22E-01

5 ADAM19 rs951958 1.57E+08 C A 0.28 8.34E-01 9.12E-01 7.28E-01 8.03E-01 7.93E-01 7.33E-01 2.67E-01

5 ADAM19 rs4704742 1.57E+08 T C 0.49 8.50E-01 8.50E-01 6.73E-01 7.89E-01 5.05E-01 5.05E-01 7.13E-01

5 ADAM19 rs6860507 1.57E+08 A G 0.49 9.23E-01 9.23E-01 6.54E-01 7.87E-01 4.30E-01 4.30E-01 6.51E-01

5 ADAM19 rs4704869 1.57E+08 G A 0.96 3.72E-01 3.75E-01 3.72E-01 3.75E-01 3.21E-01

5 ADAM19 rs3822585 1.57E+08 A G 0.48 7.82E-01 7.82E-01 6.36E-01 7.74E-01 4.45E-01 4.45E-01 5.18E-01

5 ADAM19 rs11134766 1.57E+08 C T 0.07 1.57E-01 7.26E-03 4.89E-01 4.89E-01 2.49E-01 3.22E-02 2.78E-02

5 ADAM19 rs10067096 1.57E+08 A C 0.20 9.24E-01 6.41E-01 8.92E-01 8.92E-01 6.78E-01 7.88E-01 2.30E-01

5 ADAM19 rs2287749 1.57E+08 C T 0.13 1.71E-01 1.62E-01 4.09E-01 4.09E-01 5.11E-02 5.11E-02 8.02E-01

5 ADAM19 rs1990950 1.57E+08 G T 0.41 6.39E-01 4.97E-01 5.30E-01 5.81E-01 2.30E-01 1.41E-01 7.10E-02

5 ADAM19 rs1990951 1.57E+08 C T 0.48 6.75E-01 6.75E-01 5.97E-01 7.44E-01 5.47E-01 5.47E-01 5.12E-01

5 ADAM19 rs11466782 1.57E+08 A G 0.10 7.90E-01 7.90E-01 2.85E-01 2.85E-01 1.86E-01 1.86E-01 4.99E-01

5 ADAM19 rs17054657 1.57E+08 C T 0.16 4.71E-01 4.71E-01 2.28E-01 2.28E-01 6.90E-01 6.90E-01 6.03E-01

5 ADAM19 rs2277027 1.57E+08 A C 0.34 5.11E-01 3.49E-01 6.53E-01 4.97E-01 1.54E-01 6.50E-02 1.15E-01

5 ADAM19 rs1422795 1.57E+08 T C 0.34 5.35E-01 3.76E-01 6.63E-01 5.14E-01 1.70E-01 7.38E-02 1.09E-01

5 ADAM19 rs1422794 1.57E+08 G T 0.61 3.01E-01 2.33E-01 9.92E-01 9.15E-01 2.27E-01 1.76E-01 2.30E-01

5 ADAM19 rs3734031 1.57E+08 A G 0.10 8.74E-01 8.74E-01 9.22E-01 7.49E-01 4.82E-01 4.74E-01 2.48E-01

5 ADAM19 rs17659250 1.57E+08 C T 0.27 5.31E-01 5.95E-01 5.40E-01 5.64E-01 8.82E-01 7.90E-01 9.28E-02

5 ADAM19 rs6899205 1.57E+08 G A 0.27 7.23E-01 7.24E-01 3.39E-01 2.66E-01 2.04E-01 2.04E-01 4.79E-01

5 ADAM19 rs11742401 1.57E+08 C T 0.23 1.37E-01 1.37E-01 4.03E-01 1.68E-01 1.57E-01 6.54E-02 1.83E-01

5 ADAM19 rs11750135 1.57E+08 T C 0.28 3.47E-01 3.47E-01 2.11E-01 1.12E-01 9.76E-02 8.95E-02 4.35E-01

5 ADAM19 rs3822696 1.57E+08 C T 0.50 7.24E-01 7.25E-01 5.46E-01 5.46E-01 5.97E-01 5.97E-01 6.43E-01

5 ADAM19 rs11465283 1.57E+08 C T 0.12 7.28E-01 7.28E-01 7.24E-01 4.78E-01 8.84E-01 8.84E-01 5.97E-01

5 ADAM19 rs13353878 1.57E+08 G A 0.16 1.10E-01 1.10E-01 3.14E-01 2.69E-01 1.68E-01 1.08E-01 3.12E-01

5 ADAM19 rs17054692 1.57E+08 A G 0.10 7.92E-01 6.52E-01 9.58E-01 9.58E-01 7.58E-01 7.58E-01 5.18E-01

5 ADAM19 rs11746606 1.57E+08 C T 0.11 7.34E-02 7.34E-02 9.91E-01 9.91E-01 9.30E-02 9.30E-02 9.01E-01

5 ADAM19 rs9313634 1.57E+08 C T 0.50 9.26E-01 9.26E-01 5.46E-01 5.46E-01 5.75E-01 5.75E-01 7.55E-01

5 ADAM19 rs6875485 1.57E+08 A C 0.15 8.14E-02 8.14E-02 2.15E-01 2.15E-01 1.31E-01 8.55E-02 3.32E-01

5 rs10056240 1.57E+08 A G 0.19 3.20E-01 1.50E-01 2.50E-01 2.50E-01 3.07E-01 2.36E-01 2.77E-01

5 ADAM19 rs4461616 1.57E+08 T G 0.25 4.68E-02 4.68E-02 3.06E-01 3.06E-01 9.95E-02 9.95E-02 7.61E-01

5 ADAM19 rs7725069 1.57E+08 C T 0.28 7.63E-01 7.63E-01 3.65E-01 3.65E-01 5.50E-01 5.50E-01 6.37E-01

5 ADAM19 rs7724199 1.57E+08 G A 0.14 1.36E-02 1.36E-02 8.94E-01 8.94E-01 5.21E-02 5.21E-02 8.00E-01

5 ADAM19 rs11749965 1.57E+08 T C 0.28 9.81E-01 9.81E-01 3.95E-01 3.95E-01 7.76E-01 7.76E-01 7.14E-01

5 ADAM19 rs7719224 1.57E+08 C T 0.14 2.67E-02 2.67E-02 8.29E-01 8.29E-01 1.08E-01 1.08E-01 7.67E-01

5 rs6890282 1.57E+08 T G 0.28 6.93E-01 6.93E-01 4.08E-01 4.08E-01 4.65E-01 4.65E-01 5.61E-01

Supplementary Table 4

Results of asthma meta-analysis for previously reported genes in genome-wide association studies for lung function

Gene Marker P_random P_fixed P_random P_fixed P_random P_fixed

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

Chromosome

Position

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset

+ severe + industrial

asthma)

5 ADAM19 rs10476093 1.57E+08 C A 0.14 3.81E-03 3.81E-03 2.47E-01 2.36E-01 6.80E-02 3.19E-02 2.15E-01

5 ADAM19 rs7718512 1.57E+08 A G 0.28 4.71E-01 4.71E-01 4.85E-01 4.85E-01 4.54E-01 4.54E-01 7.23E-01

6 rs9267810 32229572 T C 0.27 8.77E-01 8.42E-01 2.41E-01 2.41E-01 5.33E-01 5.30E-01 4.42E-01

6 rs505997 32229910 C T 0.04 1.42E-01 1.48E-01 4.90E-01 4.90E-01 1.15E-01 1.15E-01 5.47E-01

6PPT2 rs2269425 32231617 G A 0.14 1.63E-01 1.57E-01 4.01E-01 3.75E-01 5.36E-01 5.48E-01 3.69E-01

6PPT2 rs3134603 32233980 A G 0.87 3.49E-01 3.36E-01 2.13E-02 2.13E-02 8.08E-02 5.86E-02 3.90E-01

6 AGER rs3134940 32257794 T C 0.18 5.11E-03 2.52E-03 1.82E-02 2.03E-03 2.52E-02 4.56E-03 2.43E-02

6 AGER rs1035798 32259200 G A 0.25 9.07E-01 8.39E-01 2.50E-01 2.50E-01 7.88E-01 5.45E-01 9.11E-02

6 AGER rs2070600 32259421 C T 0.05 3.00E-01 4.55E-01 4.67E-01 4.67E-01 9.50E-01 9.10E-01 3.17E-01

6 rs1800624 32260365 A T 0.27 5.64E-01 5.05E-01 1.69E-01 1.69E-01 7.71E-01 7.74E-01 4.32E-01

6 rs204995 32262263 A G 0.23 5.95E-03 2.56E-03 2.55E-03 2.55E-03 7.98E-03 2.70E-03 1.38E-01

6 PBX2 rs204994 32262976 C T 0.22 2.93E-03 8.61E-04 3.49E-03 3.49E-03 4.08E-03 9.19E-04 1.43E-01

6 PBX2 rs204993 32263559 A G 0.27 7.84E-02 2.06E-02 4.05E-03 4.05E-03 1.09E-02 3.94E-03 1.64E-01

6 rs2856437 32265342 G A 0.04 1.39E-01 1.64E-01 2.86E-01 2.86E-01 3.83E-01 4.71E-01 8.93E-02

6 rs176095 32266297 A G 0.21 1.07E-02 7.79E-03 1.53E-03 1.53E-03 2.35E-03 6.81E-04 2.61E-01

6 GPR126 rs1953319 1.43E+08 C T 0.71 3.70E-01 3.70E-01 8.35E-01 8.35E-01 7.75E-01 7.75E-01 7.31E-01

6 GPR126 rs1931989 1.43E+08 G A 0.57 4.23E-01 3.20E-01 4.34E-01 3.85E-01 1.73E-01 1.71E-01 4.61E-01

6 GPR126 rs9321861 1.43E+08 A C 0.31 3.44E-01 1.57E-01 3.99E-01 3.70E-01 6.34E-02 1.97E-02 2.06E-01

6 GPR126 rs2782535 1.43E+08 T C 0.93 3.97E-01 3.35E-01 7.00E-01 7.00E-01 4.08E-01 4.08E-01 4.85E-01

6 GPR126 rs1931991 1.43E+08 A C 0.22 6.13E-01 6.13E-01 9.03E-01 9.03E-01 7.05E-01 7.05E-01 6.45E-01

6 GPR126 rs6570503 1.43E+08 C T 0.46 8.46E-01 8.46E-01 1.58E-01 1.58E-01 2.91E-01 2.91E-01 8.44E-01

6 GPR126 rs6903707 1.43E+08 G A 0.44 9.82E-01 9.82E-01 2.71E-01 2.71E-01 3.74E-01 3.74E-01 8.50E-01

6 GPR126 rs9399398 1.43E+08 G A 0.07 1.02E-01 1.02E-01 7.97E-01 4.79E-01 4.50E-01 5.34E-01 2.21E-01

6 GPR126 rs9376685 1.43E+08 C T 0.07 1.52E-01 1.52E-01 8.53E-01 5.67E-01 4.90E-01 5.99E-01 1.72E-01

6 GPR126 rs9389983 1.43E+08 T C 0.51 3.87E-01 3.00E-01 7.04E-01 7.04E-01 2.58E-01 2.36E-01 3.76E-01

6 GPR126 rs12189801 1.43E+08 T C 0.15 8.24E-01 8.24E-01 5.45E-01 3.94E-01 7.91E-01 7.91E-01 8.93E-01

6 GPR126 rs9496346 1.43E+08 A G 0.30 4.28E-01 4.28E-01 1.74E-01 1.74E-01 1.19E-01 1.19E-01 6.69E-01

6 GPR126 rs6570507 1.43E+08 G A 0.30 4.71E-01 4.71E-01 1.68E-01 1.68E-01 1.62E-01 1.62E-01 6.89E-01

6 GPR126 rs11155242 1.43E+08 A C 0.20 5.02E-01 5.02E-01 9.63E-01 8.39E-01 4.12E-01 4.12E-01 9.46E-01

6 rs9403384 1.43E+08 C A 0.08 8.53E-01 8.53E-01 1.07E-01 1.06E-02 2.69E-01 2.13E-01 1.66E-01

6 GPR126 rs7753012 1.43E+08 T G 0.32 3.22E-01 2.78E-01 1.22E-01 9.56E-02 1.09E-01 8.29E-02 3.36E-01

6 GPR126 rs3748069 1.43E+08 A G 0.30 4.93E-01 4.93E-01 1.18E-01 1.18E-01 1.32E-01 1.32E-01 5.77E-01

6 GPR126 rs9321871 1.43E+08 T C 0.09 8.54E-01 9.40E-01 3.21E-02 5.59E-03 3.92E-01 2.34E-01 3.77E-02

6 GPR126 rs12664078 1.43E+08 C T 0.10 9.20E-01 8.41E-01 7.07E-03 7.07E-03 2.48E-01 1.58E-01 1.77E-01

6 GPR126 rs17071819 1.43E+08 A C 0.10 9.46E-01 8.93E-01 1.09E-02 1.09E-02 2.72E-01 1.91E-01 2.15E-01

6 GPR126 rs171891 1.43E+08 G A 0.18 4.58E-01 4.58E-01 7.28E-01 7.20E-01 3.70E-01 3.70E-01 8.97E-01

6 GPR126 rs263178 1.43E+08 C T 0.30 8.35E-01 4.50E-01 1.63E-01 1.59E-01 2.32E-01 1.48E-01 2.22E-01

6 GPR126 rs839556 1.43E+08 G A 0.56 3.07E-01 2.83E-01 5.13E-01 5.13E-01 6.36E-01 6.24E-01 4.10E-01

6 GPR126 rs263114 1.43E+08 A G 0.61 8.40E-02 7.64E-02 3.15E-01 3.15E-01 2.77E-01 2.77E-01 5.10E-01

6 rs263164 1.43E+08 G A 0.19 1.53E-02 1.05E-02 2.09E-01 2.09E-01 2.83E-01 2.59E-01 1.77E-01

6 GPR126 rs1098067 1.43E+08 T C 0.80 7.84E-01 7.84E-01 9.41E-01 9.41E-01 9.26E-01 9.26E-01 9.56E-01

6 GPR126 rs263156 1.43E+08 T G 0.57 2.46E-01 2.28E-01 4.20E-01 4.20E-01 6.83E-01 6.83E-01 4.78E-01

6 GPR126 rs12213527 1.43E+08 C T 0.04 6.53E-01 6.53E-01 7.71E-01 9.27E-01 8.22E-01 8.65E-01 4.93E-02

9 PTCH1 rs357539 97186299 T G 0.70 5.77E-01 5.77E-01 4.79E-01 2.77E-01 2.89E-01 3.10E-01 2.53E-01

9 PTCH1 rs7860361 97187625 C T 0.31 4.57E-01 5.59E-01 9.44E-01 9.44E-01 6.18E-01 6.18E-01 6.69E-01

9 rs357536 97193095 A G 0.39 4.47E-01 4.47E-01 2.61E-01 2.42E-01 8.04E-01 8.04E-01 7.06E-01

9 rs419574 97194636 A G 0.07 8.15E-02 8.31E-02 4.31E-01 4.31E-01 2.33E-01 2.33E-01 6.18E-01

9 PTCH1 rs10761388 97211222 G A 0.29 7.15E-01 7.43E-01 7.81E-01 8.39E-01 8.74E-01 8.74E-01 5.86E-01

9 PTCH1 rs7388704 97211238 A G 0.28 3.56E-01 3.31E-01 2.01E-01 1.28E-01 1.22E-01 1.20E-01 3.48E-01

9 PTCH1 rs7389278 97211906 T C 0.58 3.81E-01 3.81E-01 5.34E-01 2.51E-01 2.02E-01 2.01E-01 2.26E-01

9 PTCH1 rs357522 97229279 G A 0.69 6.46E-01 5.76E-01 2.87E-01 2.75E-01 2.30E-01 2.22E-01 2.69E-01

9 rs16909865 97247123 C G 0.07 8.29E-01 8.29E-01 6.80E-01 6.80E-01 7.49E-01 7.49E-01 8.73E-01

9 PTCH1 rs10512249 97296130 G A 0.10 6.01E-01 6.01E-01 3.14E-01 1.77E-01 9.08E-02 9.08E-02 7.23E-01

9 PTCH1 rs4448343 97306191 A G 0.34 8.71E-01 8.71E-01 4.52E-01 3.95E-01 2.24E-01 1.83E-01 3.91E-01

9 rs28536742 97322914 C T 0.36 6.89E-01 6.89E-01 7.14E-01 5.76E-01 7.51E-01 7.51E-01 4.66E-01

9 PTCH1 rs576594 97359032 A G 0.59 1.35E-01 1.35E-01 9.72E-01 9.80E-01 2.95E-01 2.95E-01 7.13E-01

9 PTCH1 rs7040739 97388706 T G 0.18 9.27E-01 9.76E-01 6.06E-01 4.18E-01 5.57E-01 4.94E-01 1.61E-01

9 PTCH1 rs1806706 97389742 T C 0.09 8.63E-01 7.83E-01 7.53E-01 7.95E-01 9.73E-01 9.67E-01 3.99E-01

9 PTCH1 rs10981328 97394966 C T 0.09 6.91E-01 6.70E-01 2.81E-01 2.81E-01 4.92E-01 4.42E-01 2.52E-01

Supplementary Table 4

Results of asthma meta-analysis for previously reported genes in genome-wide association studies for lung function

Gene Marker P_random P_fixed P_random P_fixed P_random P_fixed

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

Chromosome

Position

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset

+ severe + industrial

asthma)

9 PTCH1 rs7850157 97394988 G A 0.18 9.54E-01 9.46E-01 6.89E-01 5.07E-01 6.66E-01 5.58E-01 9.46E-02

9 PTCH1 rs1889616 97399009 G A 0.35 8.49E-01 8.49E-01 4.92E-01 5.09E-01 9.06E-01 8.54E-01 3.76E-01

9 PTCH1 rs1932075 97399937 C T 0.27 8.91E-01 8.91E-01 3.74E-01 3.74E-01 9.60E-01 9.68E-01 4.55E-01

9 PTCH1 rs10818991 97407538 C T 0.41 8.24E-01 8.24E-01 2.14E-01 2.14E-01 5.24E-01 5.24E-01 7.58E-01

9 PTCH1 rs1984119 97408582 T C 0.27 9.31E-01 9.31E-01 5.53E-01 4.72E-01 7.16E-01 7.16E-01 9.38E-01

9 PTCH1 rs3824491 97408698 C A 0.09 9.14E-01 8.58E-01 7.66E-01 8.07E-01 9.66E-01 9.70E-01 3.13E-01

9 PTCH1 rs6478154 97411347 C A 0.34 5.80E-01 7.32E-01 4.25E-01 4.25E-01 3.84E-01 3.94E-01 4.12E-01

9 PTCH1 rs10988802 97416520 G A 0.14 9.15E-01 9.33E-01 2.88E-01 2.88E-01 8.17E-01 8.17E-01 5.18E-01

9 PTCH1 rs1572278 97418852 G A 0.19 4.51E-01 4.51E-01 9.67E-01 9.67E-01 7.97E-01 7.97E-01 8.77E-01

9 PTCH1 rs7864457 97421181 G A 0.19 5.35E-01 5.35E-01 9.50E-01 9.50E-01 8.55E-01 8.55E-01 8.74E-01

9 rs7860540 97422918 A G 0.61 6.20E-01 6.20E-01 2.36E-01 1.76E-01 2.11E-01 2.09E-01 4.53E-01

9 PTCH1 rs4742697 97427350 C T 0.21 4.40E-01 4.40E-01 9.05E-01 9.05E-01 7.72E-01 7.72E-01 8.15E-01

9 PTCH1 rs930280 97430932 C T 0.47 7.89E-01 9.91E-01 8.81E-02 2.92E-02 1.17E-01 1.83E-01 6.98E-02

9 PTCH1 rs6478302 97432161 G T 0.39 9.34E-01 9.34E-01 2.28E-01 1.33E-01 3.16E-01 3.16E-01 7.98E-01

9 PTCH1 rs16910073 97433775 G T 0.32 6.51E-01 6.51E-01 2.49E-01 2.49E-01 5.57E-01 5.57E-01 7.95E-01

9 PTCH1 rs12346725 97434157 T C 0.47 8.34E-01 9.22E-01 2.53E-02 1.74E-02 1.56E-01 1.79E-01 1.74E-01

9 PTCH1 rs4742700 97435442 A G 0.62 6.75E-01 6.75E-01 2.97E-01 2.49E-01 1.99E-01 1.99E-01 5.98E-01

9 PTCH1 rs10989496 97436827 G A 0.08 9.23E-01 9.23E-01 7.01E-01 7.01E-01 6.52E-01 6.52E-01 7.61E-01

9 PTCH1 rs10819953 97438777 A G 0.18 8.91E-01 6.33E-01 5.42E-01 5.42E-01 8.26E-01 8.26E-01 5.70E-01

9 PTCH1 rs4743125 97444324 T C 0.16 7.64E-01 9.82E-01 5.47E-01 5.47E-01 8.40E-01 8.73E-01 4.38E-01

9 PTCH1 rs7027192 97446002 C T 0.31 7.22E-01 7.22E-01 9.67E-02 5.64E-02 1.11E-01 1.11E-01 7.12E-01

9 PTCH1 rs9695781 97447347 A C 0.14 5.65E-01 8.03E-01 4.46E-01 4.45E-01 5.73E-01 6.67E-01 3.15E-01

9 PTCH1 rs10990303 97450226 C T 0.23 6.42E-01 7.04E-01 6.81E-01 5.47E-01 6.69E-01 6.74E-01 4.54E-01

9 PTCH1 rs10990447 97452808 G A 0.07 4.61E-01 4.61E-01 9.72E-02 8.61E-02 3.36E-01 3.36E-01 6.75E-01

9 PTCH1 rs10990568 97453958 A G 0.47 8.81E-01 8.81E-01 9.35E-02 6.78E-02 1.78E-01 1.78E-01 4.91E-01

9 PTCH1 rs13298230 97454529 C T 0.10 5.39E-01 6.58E-01 6.86E-01 8.82E-01 8.01E-01 8.61E-01 6.24E-02

9 PTCH1 rs10122178 97457661 A C 0.34 9.34E-01 9.34E-01 1.56E-01 1.12E-01 3.91E-01 3.91E-01 7.17E-01

9 PTCH1 rs10761011 97463497 A G 0.57 7.76E-02 7.76E-02 7.76E-02 7.76E-02 8.45E-01

9 PTCH1 rs10991145 97464363 G A 0.10 9.37E-01 9.37E-01 9.50E-01 9.08E-01 6.05E-01 6.05E-01 5.64E-01

9 PTCH1 rs10991208 97465449 G A 0.08 5.52E-01 5.52E-01 8.78E-02 8.78E-02 4.84E-01 4.84E-01 7.41E-01

9 PTCH1 rs10739891 97467364 C A 0.42 8.89E-01 8.89E-01 4.17E-02 2.61E-02 9.93E-02 9.93E-02 5.09E-01

9 PTCH1 rs6478489 97468440 A G 0.34 7.97E-01 7.97E-01 2.68E-02 3.82E-03 2.02E-01 2.05E-01 6.20E-02

9 PTCH1 rs4743148 97470395 A G 0.39 4.77E-01 4.83E-01 7.92E-02 5.49E-02 4.97E-01 4.66E-01 1.08E-01

9 PTCH1 rs12686467 97471458 A C 0.10 7.09E-01 7.15E-01 7.66E-01 7.63E-01 9.71E-01 9.87E-01 4.35E-01

9 PTCH1 rs817171 97474009 G T 0.90 7.52E-01 9.11E-01 2.54E-01 3.00E-01 4.79E-01 1.65E-01 4.55E-02

9 PTCH1 rs16910111 97474912 A G 0.08 6.36E-01 6.36E-01 5.42E-02 5.42E-02 3.64E-01 3.64E-01 7.76E-01

9 PTCH1 rs700998 97475094 C A 0.31 8.31E-01 8.33E-01 6.13E-03 6.13E-03 6.62E-02 6.00E-02 1.26E-01

9 rs10978343 97481707 C T 0.29 4.24E-01 4.24E-01 6.12E-02 3.10E-02 3.63E-01 4.17E-01 1.40E-01

9 PTCH1 rs915228 97484124 A G 0.09 4.98E-01 4.98E-01 1.11E-01 1.11E-01 6.15E-01 6.15E-01 6.82E-01

9 PTCH1 rs458477 97484881 A G 0.51 5.13E-01 5.54E-01 1.03E-01 1.03E-01 1.13E-01 1.16E-01 3.46E-01

9 PTCH1 rs817184 97486993 G T 0.31 5.49E-01 5.49E-01 4.03E-03 4.03E-03 4.88E-02 4.39E-02 1.64E-01

9 PTCH1 rs10816456 97491749 G A 0.24 3.80E-01 3.80E-01 1.78E-01 1.78E-01 6.99E-02 6.99E-02 9.35E-01

9 PTCH1 rs4743181 97492614 G A 0.54 8.18E-01 8.18E-01 7.89E-03 7.89E-03 1.93E-02 1.93E-02 5.63E-01

9 PTCH1 rs17372603 97492787 G A 0.10 7.64E-01 7.64E-01 5.42E-02 5.42E-02 4.12E-01 4.12E-01 7.70E-01

9 PTCH1 rs10739231 97493501 G T 0.43 8.02E-01 8.02E-01 7.82E-04 7.82E-04 1.65E-02 1.65E-02 9.27E-01

15 THSD4 rs12910319 69472797 A G 0.13 4.65E-01 4.65E-01 3.35E-01 1.61E-01 9.49E-01 9.01E-01 3.13E-01

15 THSD4 rs10518959 69477995 T C 0.58 9.84E-01 9.84E-01 3.96E-01 3.96E-01 5.02E-01 5.02E-01 8.46E-01

15 THSD4 rs7165378 69478558 C T 0.23 7.95E-01 5.50E-01 9.02E-01 9.02E-01 2.16E-01 1.27E-01 2.79E-01

15 THSD4 rs12439393 69487319 G A 0.46 3.22E-01 3.22E-01 9.05E-01 9.01E-01 1.61E-01 1.61E-01 9.60E-01

15 rs12442632 69487481 T C 0.55 3.38E-01 3.38E-01 7.46E-01 8.91E-01 1.20E-01 9.31E-02 3.82E-01

15 THSD4 rs4537971 69488714 G T 0.18 2.02E-01 2.02E-01 9.98E-01 9.82E-01 5.30E-01 5.30E-01 6.39E-01

15 THSD4 rs8040015 69491374 C T 0.22 4.15E-01 4.15E-01 9.29E-02 8.62E-02 7.82E-02 7.82E-02 8.46E-01

15 rs1837763 69494429 A G 0.22 7.39E-01 7.39E-01 4.35E-01 3.88E-01 3.47E-01 3.47E-01 6.49E-01

15 rs12595821 69502366 A G 0.28 3.91E-01 3.91E-01 5.49E-02 2.71E-02 1.05E-01 6.56E-02 2.23E-01

15 THSD4 rs920547 69505833 T C 0.67 1.93E-01 1.93E-01 8.27E-01 8.78E-01 1.74E-01 1.74E-01 6.38E-01

15 THSD4 rs7177932 69507998 G A 0.25 9.77E-01 9.77E-01 3.17E-01 3.16E-01 3.77E-01 3.77E-01 5.09E-01

15 rs4777388 69509794 A G 0.06 1.39E-01 1.39E-01 8.86E-01 8.17E-01 3.12E-01 3.12E-01 6.43E-01

15 THSD4 rs4267263 69511341 A G 0.67 1.33E-01 1.33E-01 7.65E-01 8.20E-01 1.43E-01 1.43E-01 7.21E-01

15 THSD4 rs11072283 69513632 C T 0.52 1.30E-01 1.30E-01 4.74E-01 4.74E-01 1.00E-01 1.00E-01 9.41E-01

15 THSD4 rs4517744 69514957 C T 0.59 9.54E-02 9.54E-02 3.67E-01 3.67E-01 6.24E-02 6.24E-02 8.29E-01

15 THSD4 rs8027920 69515583 A G 0.66 2.54E-01 2.54E-01 2.49E-01 2.49E-01 5.03E-02 5.03E-02 6.78E-01

Supplementary Table 4

Results of asthma meta-analysis for previously reported genes in genome-wide association studies for lung function

Gene Marker P_random P_fixed P_random P_fixed P_random P_fixed

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

Chromosome

Position

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset

+ severe + industrial

asthma)

15 THSD4 rs1866918 69518209 T C 0.32 7.42E-01 7.42E-01 4.15E-01 1.27E-01 5.07E-01 4.30E-01 1.65E-01

15 THSD4 rs751998 69524430 C T 0.30 2.08E-01 1.20E-01 2.50E-01 8.73E-02 7.78E-02 7.59E-03 3.05E-02

15 THSD4 rs4777391 69529460 C A 0.48 3.29E-01 3.05E-01 2.20E-01 1.16E-01 8.76E-01 9.37E-01 1.22E-01

15 THSD4 rs8037770 69529607 G T 0.95 4.34E-01 4.34E-01 9.61E-01 9.61E-01 1.17E-01 1.17E-01 7.45E-01

15 THSD4 rs6494934 69530637 C T 0.30 6.20E-01 2.87E-01 9.58E-02 9.58E-02 5.73E-02 1.65E-02 2.03E-01

15 THSD4 rs12323953 69532648 G A 0.30 8.83E-01 8.22E-01 1.36E-01 1.36E-01 1.04E-01 5.16E-02 1.79E-01

15 THSD4 rs17727206 69534027 A G 0.33 5.15E-01 5.05E-01 6.06E-01 6.06E-01 6.16E-01 6.79E-01 2.33E-01

15 THSD4 rs4332701 69539513 A G 0.23 5.78E-01 5.74E-01 2.93E-01 3.15E-01 8.52E-01 9.10E-01 9.70E-02

15 THSD4 rs12912393 69540196 A G 0.30 7.46E-01 6.13E-01 8.73E-01 8.73E-01 9.14E-01 9.41E-01 1.49E-01

15 THSD4 rs12907251 69546460 G A 0.21 4.31E-01 4.31E-01 6.28E-01 7.96E-01 9.88E-01 8.81E-01 2.28E-01

15 THSD4 rs9635372 69551884 T C 0.14 8.40E-01 8.43E-01 4.67E-02 3.21E-02 6.26E-01 7.34E-01 1.48E-01

15 THSD4 rs10163070 69556029 T C 0.69 3.48E-01 3.19E-01 5.51E-01 5.88E-01 1.97E-01 7.54E-02 9.74E-02

15 THSD4 rs4414447 69564568 C T 0.16 3.90E-01 2.92E-01 1.17E-01 1.17E-01 1.36E-02 9.31E-03 3.38E-01

15 THSD4 rs7164165 69571590 G T 0.87 3.62E-01 3.14E-01 1.12E-01 1.12E-01 1.30E-01 7.91E-02 2.11E-01

15 THSD4 rs7181587 69573959 C T 0.22 6.63E-01 6.66E-01 9.90E-02 9.90E-02 4.80E-01 4.79E-01 4.53E-01

15 THSD4 rs7167173 69575067 T C 0.30 9.31E-01 9.84E-01 2.94E-01 2.94E-01 6.73E-01 6.73E-01 4.79E-01

15 THSD4 rs11072293 69578693 T C 0.08 7.58E-01 5.29E-01 9.59E-01 9.36E-01 7.05E-01 7.28E-01 2.54E-02

15 THSD4 rs4132884 69588095 G A 0.51 6.33E-01 6.31E-01 5.05E-01 4.47E-01 5.22E-01 5.17E-01 3.78E-01

15 THSD4 rs7183859 69592060 C T 0.17 9.70E-01 8.47E-01 2.08E-01 2.08E-01 3.05E-01 3.05E-01 6.31E-01

15 THSD4 rs6494940 69592172 A G 0.22 6.52E-01 8.61E-01 5.01E-01 5.01E-01 8.33E-01 7.98E-01 3.79E-01

15 THSD4 rs12913071 69598123 G A 0.10 4.83E-01 4.83E-01 5.66E-01 5.66E-01 7.16E-01 7.16E-01 9.95E-01

15 THSD4 rs8041762 69601994 A G 0.60 7.10E-01 7.10E-01 6.15E-01 6.15E-01 2.14E-01 2.14E-01 7.43E-01

15 rs7163181 69606036 G A 0.58 9.85E-01 9.85E-01 7.05E-01 4.70E-01 3.05E-01 2.53E-01 3.86E-01

15 THSD4 rs4357892 69609351 A C 0.77 8.02E-01 8.02E-01 5.11E-01 5.11E-01 7.55E-01 7.55E-01 4.80E-01

15 THSD4 rs7165505 69609917 A G 0.19 7.80E-01 7.80E-01 3.53E-01 2.92E-01 8.38E-01 8.86E-01 4.09E-01

15 THSD4 rs4482234 69610822 G A 0.25 2.33E-01 2.33E-01 7.05E-01 4.35E-01 2.88E-01 3.58E-01 1.22E-01

15 THSD4 rs11072297 69618355 C T 0.44 6.21E-01 6.75E-01 4.26E-01 4.26E-01 4.36E-01 5.04E-01 3.38E-01

15 THSD4 rs12442633 69619193 G T 0.02 5.51E-01 5.51E-01 9.53E-01 9.53E-01 6.68E-01 6.68E-01 9.55E-01

15 THSD4 rs4777408 69621046 G A 0.24 6.90E-01 6.90E-01 5.35E-01 4.47E-01 9.37E-01 9.73E-01 1.86E-01

15 THSD4 rs12148628 69621129 T C 0.25 5.01E-01 5.90E-01 6.06E-01 6.06E-01 6.33E-01 7.68E-01 2.57E-01

15 THSD4 rs4777409 69623478 G T 0.51 9.29E-01 7.43E-01 8.88E-01 8.74E-01 6.27E-01 5.61E-01 3.80E-01

15 THSD4 rs8023639 69627360 A G 0.39 8.02E-01 9.87E-01 8.57E-01 8.41E-01 7.99E-01 7.94E-01 4.63E-01

15 THSD4 rs6494944 69628016 C T 0.58 9.26E-01 9.71E-01 6.55E-01 3.46E-01 7.33E-01 6.59E-01 2.67E-01

15 THSD4 rs6494946 69628167 G A 0.33 8.13E-01 8.13E-01 8.98E-01 8.39E-01 7.52E-01 7.52E-01 5.41E-01

15 THSD4 rs6494947 69630134 C T 0.83 8.93E-01 8.93E-01 3.48E-01 3.48E-01 5.26E-01 5.26E-01 5.58E-01

15 THSD4 rs4447378 69634381 G A 0.44 5.71E-01 5.71E-01 2.78E-01 1.57E-01 9.92E-01 9.92E-01 4.83E-01

15 THSD4 rs11633192 69635366 A G 0.39 6.28E-01 6.28E-01 3.70E-01 3.51E-01 7.69E-01 7.69E-01 7.43E-01

15 THSD4 rs7183453 69641001 G A 0.27 4.75E-01 4.13E-01 1.96E-01 1.96E-01 7.82E-01 7.27E-01 3.10E-01

15 THSD4 rs11072298 69642036 A C 0.76 2.57E-01 2.59E-01 6.94E-01 5.91E-01 8.70E-01 8.72E-01 4.65E-01

15 THSD4 rs11857297 69643146 G A 0.19 8.70E-01 8.70E-01 2.86E-01 2.62E-01 9.61E-01 9.61E-01 6.58E-01

15 THSD4 rs8040598 69644422 G A 0.90 3.50E-01 3.73E-01 4.00E-01 3.76E-01 3.55E-01 3.55E-01 3.54E-01

15 THSD4 rs8042355 69647900 G A 0.79 7.15E-01 7.12E-01 3.75E-01 3.75E-01 3.66E-01 3.66E-01 5.87E-01

15 THSD4 rs3923493 69653686 C T 0.36 4.86E-01 4.86E-01 8.88E-01 8.72E-01 6.54E-01 6.54E-01 7.78E-01

15 THSD4 rs3923492 69653762 A G 0.17 3.20E-01 3.20E-01 3.82E-01 3.65E-01 6.11E-01 6.11E-01 8.09E-01

15 THSD4 rs4321149 69656526 A G 0.59 8.11E-01 8.06E-01 1.00E-01 1.00E-01 2.94E-01 2.94E-01 6.51E-01

15 THSD4 rs11072304 69659473 A G 0.29 2.45E-01 2.45E-01 3.21E-01 1.38E-01 7.96E-01 7.67E-01 2.99E-01

15 THSD4 rs12591454 69663064 G A 0.33 6.91E-01 7.37E-01 5.97E-01 5.97E-01 6.39E-01 6.39E-01 5.80E-01

15 THSD4 rs4459504 69670984 A G 0.39 9.72E-01 9.72E-01 9.96E-01 9.55E-01 8.51E-01 8.51E-01 8.19E-01

15 THSD4 rs8027825 69672046 A G 0.48 7.92E-01 7.36E-01 8.87E-01 8.68E-01 9.63E-01 9.63E-01 5.14E-01

15 THSD4 rs4777414 69675927 T C 0.09 5.21E-01 5.21E-01 9.41E-01 9.41E-01 6.90E-01 6.90E-01 8.53E-01

15 THSD4 rs7176825 69677121 G A 0.11 5.51E-01 5.77E-01 8.20E-01 8.19E-01 4.05E-01 4.05E-01 4.75E-01

15 THSD4 rs11635147 69677362 A G 0.30 8.65E-01 8.99E-01 3.28E-01 3.28E-01 3.49E-01 3.49E-01 7.07E-01

15 THSD4 rs4398066 69679269 A G 0.41 7.02E-01 6.85E-01 3.76E-01 3.76E-01 1.72E-01 1.72E-01 7.85E-01

15 THSD4 rs4349100 69684923 A G 0.69 4.66E-01 4.66E-01 7.06E-01 6.70E-01 2.73E-01 2.73E-01 6.02E-01

15 THSD4 rs4430697 69685390 A G 0.41 2.63E-01 2.63E-01 6.63E-01 6.63E-01 1.29E-01 1.29E-01 8.45E-01

15 THSD4 rs4354882 69688282 A G 0.48 8.58E-02 8.58E-02 4.92E-01 4.59E-01 2.60E-01 2.60E-01 5.55E-01

15 THSD4 rs13379548 69689719 T C 0.15 6.97E-01 5.51E-01 4.29E-01 4.29E-01 5.41E-01 5.41E-01 4.81E-01

15 THSD4 rs12903601 69689872 G T 0.13 9.22E-01 9.27E-01 4.87E-01 4.87E-01 1.70E-01 1.76E-01 3.40E-01

15 THSD4 rs11858418 69691889 A G 0.16 1.01E-02 1.01E-02 8.97E-01 5.06E-01 9.30E-02 9.87E-02 1.41E-01

15 THSD4 rs13329645 69692103 G A 0.12 1.74E-01 1.74E-01 7.96E-01 7.91E-01 3.91E-01 3.91E-01 8.27E-01

15 rs1501429 69692566 C T 0.25 1.62E-01 1.13E-01 6.97E-01 6.97E-01 9.66E-01 9.38E-01 3.88E-01

15 THSD4 rs17795798 69694798 G A 0.24 1.43E-01 9.94E-02 6.65E-01 6.65E-01 9.82E-01 9.95E-01 4.17E-01

Supplementary Table 4

Results of asthma meta-analysis for previously reported genes in genome-wide association studies for lung function

Gene Marker P_random P_fixed P_random P_fixed P_random P_fixed

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

Chromosome

Position

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset

+ severe + industrial

asthma)

15 THSD4 rs1983033 69696544 C A 0.36 3.23E-01 2.57E-01 6.02E-01 6.02E-01 5.07E-01 5.07E-01 7.64E-01

15 THSD4 rs12905774 69697318 C T 0.13 8.79E-01 9.79E-01 5.82E-01 5.82E-01 2.27E-01 2.63E-01 1.44E-01

15 THSD4 rs12910343 69697769 A G 0.85 6.89E-01 5.35E-01 6.25E-01 6.12E-01 3.41E-01 3.21E-01 3.41E-01

15 THSD4 rs7182578 69699005 T C 0.15 4.33E-01 4.14E-01 7.29E-01 7.29E-01 4.04E-01 4.04E-01 7.95E-01

15 THSD4 rs985868 69702332 A G 0.39 9.25E-01 9.12E-01 5.66E-01 5.66E-01 8.60E-01 8.61E-01 3.57E-01

15 THSD4 rs4572339 69706259 T C 0.54 7.39E-01 7.39E-01 4.55E-01 4.55E-01 4.61E-01 4.61E-01 7.13E-01

15 THSD4 rs7167646 69707213 C A 0.57 8.63E-01 8.63E-01 5.54E-01 3.90E-01 4.82E-01 4.63E-01 3.78E-01

15 THSD4 rs6494949 69708263 A G 0.87 8.70E-01 8.40E-01 7.86E-01 7.86E-01 9.23E-01 9.23E-01 5.66E-01

15 THSD4 rs950667 69708689 C T 0.65 7.99E-01 5.88E-01 9.31E-01 9.31E-01 9.44E-01 9.33E-01 2.49E-01

15 THSD4 rs1392989 69708797 G T 0.86 6.93E-01 6.93E-01 9.88E-01 9.52E-01 5.32E-01 5.32E-01 6.19E-01

15 THSD4 rs950668 69708893 G A 0.47 5.31E-02 5.31E-02 3.80E-01 3.40E-01 2.50E-01 2.50E-01 4.74E-01

15 THSD4 rs1875417 69709089 A G 0.67 1.77E-01 1.77E-01 5.31E-01 5.31E-01 4.25E-01 4.25E-01 9.12E-01

15 THSD4 rs11630997 69709527 C T 0.88 3.31E-01 2.39E-01 7.03E-01 7.03E-01 2.59E-01 2.46E-01 1.59E-01

15 THSD4 rs1542879 69712168 T G 0.43 5.89E-01 5.89E-01 1.36E-01 1.03E-01 2.02E-01 1.26E-01 1.93E-01

15 THSD4 rs4777425 69713987 G A 0.28 7.09E-01 7.09E-01 4.18E-01 4.16E-01 8.21E-01 8.25E-01 3.56E-01

15 THSD4 rs2279787 69714177 T G 0.09 6.21E-01 8.24E-01 4.33E-01 7.33E-01 3.93E-01 6.12E-01 9.40E-02

15 THSD4 rs12917055 69715167 A G 0.47 8.73E-01 9.29E-01 1.89E-01 1.39E-01 7.30E-01 4.22E-01 4.27E-02

15 THSD4 rs7180181 69717674 A G 0.37 7.94E-01 9.42E-01 5.55E-01 5.20E-01 6.86E-01 9.33E-01 5.21E-02

15 THSD4 rs16955919 69718655 T G 0.09 7.27E-01 9.67E-01 5.92E-01 8.81E-01 5.33E-01 8.97E-01 3.40E-02

15 THSD4 rs7173503 69721666 T C 0.35 6.17E-01 7.71E-01 5.56E-01 5.32E-01 6.22E-01 9.25E-01 2.45E-02

15 THSD4 rs11072313 69725411 A G 0.26 6.78E-01 6.32E-01 3.30E-01 3.25E-01 8.53E-01 8.32E-01 1.30E-01

15 THSD4 rs1995336 69736380 A G 0.34 6.22E-01 7.30E-01 5.12E-01 5.12E-01 6.36E-01 8.71E-01 6.65E-02

15 THSD4 rs954458 69739107 A C 0.25 6.96E-01 6.68E-01 3.06E-01 2.93E-01 9.14E-01 9.42E-01 1.54E-01

15 THSD4 rs8036118 69747631 G A 0.25 6.85E-01 6.46E-01 3.24E-01 3.10E-01 9.05E-01 9.28E-01 1.71E-01

15 THSD4 rs16956030 69749340 A G 0.35 6.14E-01 7.20E-01 4.26E-01 4.15E-01 6.59E-01 9.32E-01 3.87E-02

15 THSD4 rs931728 69754600 A G 0.25 7.14E-01 6.78E-01 3.25E-01 3.22E-01 9.29E-01 9.51E-01 1.78E-01

15 THSD4 rs4776567 69756906 A G 0.95 1.70E-01 8.61E-02 7.13E-01 7.13E-01 3.70E-01 2.71E-01 2.12E-01

15 THSD4 rs8026748 69757818 G A 0.13 3.24E-01 3.24E-01 9.86E-01 9.92E-01 4.86E-01 4.86E-01 6.07E-01

15 THSD4 rs8033100 69764500 T C 0.14 6.68E-01 6.68E-01 8.87E-01 7.44E-01 9.60E-01 7.38E-01 2.32E-01

15 THSD4 rs11855321 69766434 A G 0.13 2.39E-01 2.39E-01 8.22E-01 7.42E-01 5.13E-01 5.13E-01 5.35E-01

15 THSD4 rs7180648 69769648 C T 0.14 6.23E-01 6.23E-01 9.73E-01 5.83E-01 9.32E-01 6.68E-01 1.92E-01

15 THSD4 rs8027960 69780809 T C 0.27 7.15E-01 6.84E-01 9.14E-01 9.55E-01 7.74E-01 5.36E-01 1.23E-01

15 THSD4 rs2173877 69781816 G A 0.79 8.90E-01 9.41E-01 7.59E-01 5.97E-01 9.27E-01 9.84E-01 3.45E-01

15 THSD4 rs8033791 69782310 G T 0.58 6.73E-01 6.73E-01 8.81E-01 9.92E-01 9.42E-01 9.42E-01 6.80E-01

15 THSD4 rs872471 69785119 A G 0.20 3.76E-01 3.76E-01 8.37E-01 8.37E-01 7.12E-01 7.12E-01 4.81E-01

15 THSD4 rs12591953 69787332 A G 0.60 8.30E-01 8.30E-01 9.37E-01 8.92E-01 8.21E-01 8.21E-01 6.38E-01

15 THSD4 rs11632479 69794778 C T 0.89 9.77E-01 9.77E-01 6.36E-01 3.65E-01 5.33E-01 4.19E-01 1.32E-01

15 THSD4 rs8033309 69797752 G A 0.11 7.89E-01 7.89E-01 5.74E-01 2.83E-01 4.14E-01 2.98E-01 1.36E-01

15 THSD4 rs4777450 69805523 G A 0.69 8.45E-01 8.45E-01 6.18E-01 5.78E-01 5.99E-01 5.99E-01 5.14E-01

15 THSD4 rs8041918 69806558 C T 0.80 6.91E-01 6.91E-01 9.81E-01 9.81E-01 8.38E-01 8.38E-01 6.52E-01

15 THSD4 rs13379892 69806658 C T 0.07 7.45E-01 7.01E-01 5.78E-01 3.50E-01 9.30E-01 9.13E-01 1.90E-01

15 THSD4 rs17737742 69809809 C T 0.20 7.94E-01 7.94E-01 7.47E-01 6.54E-01 7.86E-01 7.86E-01 6.20E-01

15 THSD4 rs4777451 69812229 C T 0.70 8.07E-01 8.07E-01 3.28E-01 3.20E-01 8.51E-01 8.51E-01 9.16E-01

15 THSD4 rs11072323 69813033 T C 0.90 9.45E-01 9.45E-01 4.41E-01 1.79E-01 4.67E-01 3.98E-01 4.01E-02

15 THSD4 rs11636972 69818817 G A 0.75 9.99E-01 9.97E-01 2.46E-01 1.51E-01 4.85E-01 4.17E-01 2.89E-01

15 THSD4 rs1872056 69827828 C T 0.26 9.45E-01 9.45E-01 2.56E-01 6.53E-02 4.65E-01 4.07E-01 8.83E-02

15 rs3816768 69828188 C A 0.26 8.09E-01 8.21E-01 4.56E-01 1.04E-01 5.04E-01 4.86E-01 5.67E-02

15 THSD4 rs16956149 69828693 A G 0.15 2.71E-01 2.71E-01 1.85E-02 1.85E-02 4.02E-03 4.02E-03 5.14E-01

15 THSD4 rs1564693 69847103 T C 0.08 9.18E-01 9.18E-01 9.46E-01 9.46E-01 9.07E-01 9.07E-01 5.76E-01

15 THSD4 rs11072326 69851773 A G 0.61 1.95E-01 1.95E-01 3.84E-01 3.12E-01 5.53E-01 5.53E-01 4.42E-01

15 THSD4 rs6494967 69854015 G A 0.70 9.29E-01 9.39E-01 3.73E-01 3.61E-01 8.70E-01 8.40E-01 1.79E-01

15 THSD4 rs3825804 69857059 G A 0.07 1.77E-01 1.15E-01 2.11E-01 2.11E-01 8.89E-01 9.30E-01 2.19E-01

15 THSD4 rs7402189 69857983 G A 0.78 6.41E-01 6.73E-01 5.98E-01 5.97E-01 9.72E-01 7.71E-01 4.09E-02

15 THSD4 rs17811309 69860243 G A 0.11 2.03E-01 2.02E-01 9.44E-01 9.44E-01 3.38E-01 3.38E-01 9.54E-01

15 THSD4 rs3743052 69862918 G A 0.29 2.69E-01 2.69E-01 9.76E-01 9.76E-01 8.14E-01 8.14E-01 8.94E-01

15 THSD4 rs11639050 69868334 G T 0.06 1.44E-01 1.44E-01 9.41E-01 9.41E-01 1.30E-01 1.30E-01 7.37E-01

15 THSD4 rs900542 69869678 G A 0.25 8.03E-01 8.03E-01 5.20E-01 5.20E-01 8.44E-01 8.44E-01 9.66E-01

15 THSD4 rs11634405 69871747 A G 0.63 1.94E-01 1.94E-01 4.66E-01 3.52E-01 4.15E-01 4.15E-01 5.06E-01

15 CHRNA5 rs6495306 76652948 G A 0.58 3.98E-01 3.06E-01 2.69E-01 2.73E-01 9.33E-01 8.68E-01 2.97E-01

15 CHRNA5 rs680244 76658343 T C 0.58 3.51E-01 2.70E-01 1.76E-01 1.76E-01 9.87E-01 9.42E-01 2.69E-01

15 CHRNA5 rs621849 76659916 G A 0.58 3.49E-01 2.70E-01 1.92E-01 1.94E-01 9.93E-01 9.22E-01 2.74E-01

Supplementary Table 4

Results of asthma meta-analysis for previously reported genes in genome-wide association studies for lung function

Gene Marker P_random P_fixed P_random P_fixed P_random P_fixed

P_heterogeneity across

all studies

Ref allele

Alt allele

Alt Allele Freq

Chromosome

Position

Childhood onset

asthma

Later onset asthma

All samples

(childhood onset + later

onset + unknown onset

+ severe + industrial

asthma)

15 CHRNA3 rs578776 76675455 G A 0.28 4.68E-01 4.68E-01 6.56E-01 6.56E-01 3.82E-01 3.82E-01 9.61E-01

15 CHRNA3 rs12910984 76678682 G A 0.77 4.64E-01 4.07E-01 1.76E-01 1.76E-01 8.52E-01 8.52E-01 6.41E-01

15 CHRNA3 rs1051730 76681394 G A 0.34 9.42E-01 9.42E-01 6.13E-01 7.50E-01 6.38E-01 6.38E-01 8.66E-01

15 CHRNA3 rs3743077 76681951 C T 0.42 5.22E-01 4.33E-01 2.37E-01 2.37E-01 8.86E-01 9.34E-01 3.00E-01

15 CHRNA3 rs938682 76683602 G A 0.77 5.71E-01 5.02E-01 1.89E-01 1.89E-01 9.93E-01 9.93E-01 6.06E-01

15 CHRNA3 rs12914385 76685778 C T 0.39 9.44E-01 9.44E-01 8.75E-01 8.70E-01 9.10E-01 9.10E-01 8.55E-01

15 CHRNA3 rs8042374 76695087 A G 0.23 4.69E-01 4.08E-01 1.48E-01 1.48E-01 9.47E-01 9.47E-01 5.90E-01

15 CHRNA3 rs3743075 76696507 T C 0.63 6.80E-01 6.80E-01 2.88E-01 2.88E-01 8.74E-01 8.74E-01 6.36E-01

P_random and P_fixed are respectively the P-values for test of association of marker with disease using random or fixed effects model respectively

P_heterogeneity = P-value of Cochran's Q test for heterogeneity of ORs across all studies

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