Zhaohui “Steve” Qin Google Scholar

• Liu C, Qian L, Vallega KA, Ma G, Zong D, *Chen L, Wang S, Ramalingam SR, Qin ZS, Sun SY. (2022) The novel BET degrader, QCA570, is highly active against the growth of human NSCLC cells and synergizes with osimertinib in suppressing osimertinib-resistant EGFR-mutant NSCLC cells. Am J Cancer Res. 12. 779-792.
• *Ma W, Sharma S, Jin P, Gourley SL, Qin ZS. (2022) LRcell: detecting the source of differential expression at the sub-cell type level from bulk RNA-seq data. Brief. Bioinform. 23. bbac063.
• Wen Z, Zhang W, Zhong Q, Xu J, Hou C, Qin ZS, Li L. (2022) Extensive Chromatin Structure-Function Associations Revealed by Accurate 3D Compartmentalization Characterization. Front. Cell Dev. Biol. 10. 845118.
• Kong HE, Lim J, Linsalata A, Kang Y, Malik I, Allen EG, Cao Y, Shubeck L, Johnston R, *Huang Y, Gu Y, Guo X, Zwick ME, Qin ZS, Wingo TS, Juncos J, Nelson DL, Epstein M, Cutler DJ, Todd PK, Sherman SL, Warren ST, Jin P (2022). Identification of PSMB5 as a genetic modifier of Fragile X-associated Tremor/Ataxia Syndrome. PNAS. 119. e2118124119
• Welbourn S, Chakraborty S, Yang J, Gleinich A, Gangadhara S, Khan S, Ferrebee C, Yagnik B, Burton S, Charles T, Smith SA, Williams D, Mopuri R, Upadhyay A, Thompson J, Price N, Wang S, Qin ZS, Shen X, Williams L, Eisel N, Peters T, Zhang L, Kilembe W, Karita E, Tomaras G, Bosinger S, Amara R, Azadi P, Wright E, Gnanakaran S, Derdeyn C. (2022) A neutralizing antibody target in early HIV-1 infection was recapitulated in rhesus macaques immunized with the transmitted/founder envelope sequence. PLoS Pathogens. 18. e1010488.
• Sahoo A, Jones AT, Cheedarla N, Gangadhara S, Roy V, Styles TT, Shiferaw A, Walter KL, Williams LD, Shen X, Ozorowski G, Lee WH, Burton S, Qin ZS, Derdeyn CA, Ward AB, Clements JD, Varadarajan R, Tomaras GD, Kozlowski PA, Alter G, Amara RR. (2022) A clade C HIV-1 vaccine protects against heterologous SHIV infection by modulating IgG glycosylation and T helper response in macaques. Accepted. Sci Immunol. 7. eabl4102.

Yijuan Hu Research Gate

• Hu, Y. J.* and Satten, G. A. (2023) Compositional analysis of microbiome data using the linear decomposition model (LDM). bioRxiv, doi.org/10.1101/2023.05.26.542540.
• Hu, Y.† , Satten, G. A., and Hu, Y. J.* (2023) Impact of experimental bias on compositional analysis of microbiome data. bioRxiv, doi.org/10.1101/2023.02.08.527766.
• Li, Y.† , Hu, Y. J.*, and Satten, G. A. (2022) MERIT: controlling Monte-Carlo error rate in large-scale Monte-Carlo hypothesis testing. bioRxiv, doi.org/10.1101/2022.01.15.476485. Under revision for Statistics in Medicine. Software developed: R package MERIT
• Hu, Y.† , Satten, G. A., and Hu, Y. J.* (2022) LOCOM: A logistic regression model for testing differential abundance in compositional microbiome data with false discovery rate control. Proceedings of the National Academy of Sciences, 119(30):e2122788119, doi.org/10.1073/pnas.2122788119. Software developed: R package LOCOM
• Hu, Y.† , Li, Y., Satten, G. A., Hu, Y. J.* (2022) Testing microbiome associations with censored survival outcomes at both the community and individual taxon levels. PLoS Computational Biology, https://doi.org/10.1371/journal.pcbi.1010509. Software developed: R package LDM
• Hu, Y. J.*, Satten, G. A. (2022) A rarefaction-without-resampling extension of PERMANOVA for testing presence-absence associations in the microbiome. Bioinformatics, 38(15), 3689–3697. Software developed: R package LDM

Chang Su Google Scholar

• Biao Cai, Jingfei Zhang, Hongyu Li, Chang Su and Hongyu Zhao. Statistical inference of cell-type proportions estimated from bulk expression data (2024). [paper]
• Chang Su, Jingfei Zhang, Hongyu Zhao. Estimating cell-type-specific gene co-expression networks from bulk gene expression data with an application to Alzheimer’s disease. Journal of the American Statistical Association (2024). [preprint] [code] [R package]
• Chang Su, Zichun Xu, Xinning Shan, Biao Cai, Hongyu Zhao, Jingfei Zhang. Cell-type-specific co-expression inference from single cell RNA-sequencing data. Nature Communications (2023). [paper] [R package] [Python package]
• Xinyi Zhong*, Chang Su*, Zhou Fan. Empirical Bayes PCA in high dimensions. Journal of the Royal Statistical Society: Series B (Statistical Methodology) (2022). [paper] [software]  *: The authors contributed equally to this work.
• Hussain Bukhari*, Chang Su*, Elvisha Dhamala, Zijin Gu, Keith Jamison, Amy Kuceyeski. Graph‐matching distance between individuals’ functional connectomes varies with relatedness, age, and cognitive score. Human Brain Mapping (2023). [paper]  *: The authors contributed equally to this work.
• Biqing Zhu, Jae-Min Park, Sarah Coffey, …, Chang Su, Hongyu Zhao, David A Hafler, Sreeganga S Chandra, Le Zhang. Single-cell transcriptomic and proteomic analysis of Parkinson’s disease Brains. Under revision at Science Translational Medicine. [preprint]

Julia Wrobel Google Scholar