Fan Yang

Tsinghua University | TH · School of Life Sciences

Microsatellite instability (MSI) has been approved as a pan-cancer biomarker for immune checkpoint blockade (ICB) therapy. However, current MSI identification methods are not available for all patients. We proposed an ensemble multiple instance deep learning model to predict microsatellite status based on histopathology images, and interpreted the...

The sudden deterioration of patients with novel coronavirus disease 2019 (COVID-19) into critical illness is of major concern. It is imperative to identify these patients early. We show that a deep learning-based survival model can predict the risk of COVID-19 patients developing critical illness based on clinical characteristics at admission. We d...

The catalase-negative streptococci produce as well as tolerate high levels of H 2 O 2 . This work reports the molecular mechanisms of low-H 2 O 2 -concentration-induced adaptation to higher H 2 O 2 stress in a Streptococcus species, in which the peroxide-responsive repressor PerR and its redox regulons play the major role. Distinct from the Bacillu...

Background Microsatellite instability (MSI) is a negative prognostic factor for colorectal cancer (CRC) and can be used as a predictor of success for immunotherapy in pan-cancer. However, current MSI identification methods are not available for all patients. We propose an ensemble multiple instance learning (MIL)-based deep learning model to predic...

Microsatellite instability is an important clinical marker for various types of cancers and is related to patients’ prognosis and response to immunotherapy. Currently, identifying microsatellite status relies on genetic tests, which are not widely accessible for every patient. We propose a novel pipeline to predict MSI directly from histology slide...

The Lon protease selectively degrades abnormal proteins or certain normal proteins in response to environmental and cellular conditions in many prokaryotic and eukaryotic organisms. However, the mechanism(s) behind the substrate selection of normal proteins remains largely unknown. In this study, we identified 10 new substrates of F. tularensis Lon...

Glutaredoxins (GRXs), small redox proteins that use reduced glutathione (GSH) as an electron donor, are key components of the cellular antioxidant system. In this study, we used Saccharomyces cerevisiae as a model system to investigate the effects of GRX deletion on yeast chronological life span (CLS). Deletion of either Grx1 or Grx2 shortened yeas...

Objective: Obstructive sleep apnea hypopnea syndrome (OSAHS) is an independent risk factor for many clinical complications. However, how OSAHS cause multiple organ injury and initiate inter-organ communication remains unclear. Moreover, despite it is well-recognized that chronic intermittent hypoxia (CIH) is a main feature of OSAHS, specific contr...

Glutaredoxin-1 (Grx1) catalyzes deglutathionylation with glutathione as a cofactor. Accumulating evidence indicates important roles for Grx1 and S-glutathionylation in the aging process; however, further exploration of Grx1-regulated cellular processes is important to understand the functions of Grx1 in aging. In the present study, we constructed s...

Arrhythmogenic Right Ventriclar Cardiomyopathy (ARVC) is heredity cardiomyopathy characterized with fibro-fatty replacement of myocardium. Few comprehensive profiling study based on human cardiac tissues was reported before, and the gene expression pattern characteristics remains to be described. In this study, large scaled quantitative proteomics...

Manganese contributes to anti-oxidative stress particularly in catalase-devoid bacteria, and DtxR family metalloregulators, through sensing cellular Mn(2+) content, regulate its homeostasis. Here, we show that metalloregulator MntR (So-MntR) functions dually as Mn(2+) and H2O2 sensors in mediating H2O2 resistance by an oral streptococcus. H2O2 disr...

N-acetyl cysteine (NAC) is a widely used antioxidant in research and clinical therapy. In the present study, Drosophila were feed with NAC, and analyzed. We found that NAC-treatment effectively increased the cellular glutathione (GSH) content as well as the NADH/NAD+ ratio in fruit flies. Using quantitative proteomic technology, we identified 239 d...

Protein glutathionylation is an important post-translational modification that regulates many cellular processes, including energy metabolism, signal transduction, and protein homeostasis. Global profiling of glutathionylated proteins (denoted as glutathionylome) is crucial for understanding redox-regulated signal transduction. Here, we developed a...

Tuberculosis, caused by the pathogen Mycobacterium tuberculosis, is a worldwide public health threat. Mycobacterium tuberculosis is capable of resisting various stresses in host cells, including high levels of ROS and copper ions. To better understand the resistance mechanisms of mycobacteria to copper, we generated a copper-resistant strain of Myc...