Quantitative quality-assessment techniques to compare fractionation and depletion methods in SELDI-TOF mass spectrometry experiments. - Jaroslaw Harezlak; Mike Wang; David Christiani; Xihong Lin (Bioinform., 2007)

Estimation and testing for the effect of a genetic pathway on a disease outcome using logistic kernel machine regression via logistic mixed models. - Dawei Liu; Debashis Ghosh; Xihong Lin (BMC Bioinform., 2008)

Sparse linear discriminant analysis for simultaneous testing for the significance of a gene set/pathway and gene selection. - Michael C. Wu; Lingsong Zhang; Zhaoxi Wang; David Christiani; Xihong Lin (Bioinform., 2009)

Gene set analysis using variance component tests. - Yen-Tsung Huang; Xihong Lin (BMC Bioinform., 2013)

CpGFilter: model-based CpG probe filtering with replicates for epigenome-wide association studies. - Jun Chen; Allan C. Just; Joel Schwartz; Lifang Hou; Nadereh Jafari; Zhifu Sun; Jean-Pierre A. Kocher; Andrea A. Baccarelli; Xihong Lin (Bioinform., 2016)

Rare variant association test in family-based sequencing studies. - Xuefeng Wang; Zhenyu Zhang; Nathan Morris; Tianxi Cai; Seunggeun Lee; Chaolong Wang; Timothy W. Yu; Christopher A. Walsh; Xihong Lin (Briefings Bioinform., 2017)

FDR control of detected regions by multiscale matched filtering. - Nezamoddin Nezamoddini-Kachouie; Xihong Lin; Armin Schwartzman (Commun. Stat. Simul. Comput., 2017)

Identification of differentially expressed gene sets using the Generalized Berk-Jones statistic. - Sheila M. Gaynor; Ryan Sun; Xihong Lin; John Quackenbush (Bioinform., 2019)

STAAR workflow: a cloud-based workflow for scalable and reproducible rare variant analysis. - Sheila M. Gaynor; Kenneth E. Westerman; Lea L. Ackovic; Xihao Li; Zilin Li; Alisa Manning; Anthony A. Philippakis; Xihong Lin (Bioinform., 2022)

COVID-19 Spread Mapper: a multi-resolution, unified framework and open-source tool. - Andy Shi; Sheila M. Gaynor; Rounak Dey; Haoyu Zhang; Corbin Quick; Xihong Lin (Bioinform., 2022)

Caught in the Crossfire: Fears of Chinese-American Scientists. - Yu Xie; Xihong Lin; Ju Li; Qian He; Junming Huang 001 (CoRR, 2022)

FAVOR: functional annotation of variants online resource and annotator for variation across the human genome. - Hufeng Zhou; Theodore Arapoglou; Xihao Li; Zilin Li; Xiuwen Zheng 001; Jill Moore; Abhijith Asok; Sushant Kumar; Elizabeth E. Blue; Steven Buyske; Nancy J. Cox; Adam Felsenfeld; et al. (Nucleic Acids Res., 2023)

Empower an End-to-end Scalable and Interpretable Data Science Ecosystem using Statistics, AI and Domain Science. - Xihong Lin (KDD, 2024)

Advancing Real-time Pandemic Forecasting Using Large Language Models: A COVID-19 Case Study. - Hongru Du; Jianan Zhao 002; Yang Zhao 013; Shaochong Xu; Xihong Lin; Yiran Chen 001; Lauren M. Gardner; Hao (Frank) Yang (CoRR, 2024)

A statistical framework for multi-trait rare variant analysis in large-scale whole-genome sequencing studies. - Xihao Li; Han Chen; Margaret Sunitha Selvaraj; Eric Van Buren; Hufeng Zhou; Yuxuan Wang 008; Ryan Sun; Zachary R. McCaw; Zhi Yu; Min-Zhi Jiang; Daniel DiCorpo; Sheila M. Gaynor; et al. (Nat. Comput. Sci., 2025)

Advancing real-time infectious disease forecasting using large language models. - Hongru Du; Yang Zhao 013; Jianan Zhao 002; Shaochong Xu; Xihong Lin; Yiran Chen 001; Lauren M. Gardner; Hao (Frank) Yang (Nat. Comput. Sci., 2025)

CellForge: Agentic Design of Virtual Cell Models. - Xiangru Tang; Zhuoyun Yu; Jiapeng Chen; Yan Cui; Daniel Shao; Weixu Wang; Fang Wu; Yuchen Zhuang; Wenqi Shi; Zhi Huang; Arman Cohan; Xihong Lin; et al. (CoRR, 2025)