Fast and accurate identification of semi-tryptic peptides in shotgun proteomics. - Pedro Alves; Randy J. Arnold; David E. Clemmer; Yixue Li; James P. Reilly; Quanhu Sheng; Haixu Tang; Zhiyin Xun; Rong Zeng; Predrag Radivojac (Bioinform., 2008)

A Bayesian Approach to Protein Inference Problem in Shotgun Proteomics. - Yong Fuga Li; Randy J. Arnold; Yixue Li; Predrag Radivojac; Quanhu Sheng; Haixu Tang (J. Comput. Biol., 2009)

QuantWiz: A scalable parallel software package for label-free protein quantification. - Jing Wang; Yunquan Zhang; Xianyi Zhang; Xiangzheng Sun; Quanhu Sheng (BIC-TA, 2010)

Detection of internal exon deletion with exon Del. - Yan Guo; Shilin Zhao; Brian D. Lehmann; Quanhu Sheng; Timothy M. Shaver; Thomas Stricker; Jennifer A. Pietenpol; Yu Shyr (BMC Bioinform., 2014)

DupChecker: a bioconductor package for checking high-throughput genomic data redundancy in meta-analysis. - Quanhu Sheng; Yu Shyr; Xi Chen (BMC Bioinform., 2014)

Heatmap3: an improved heatmap package with more powerful and convenient features. - Shilin Zhao; Yan Guo; Quanhu Sheng; Yu Shyr (BMC Bioinform., 2014)

NGSPERL: a semi-automated framework for large scale next generation sequencing data analysis. - Quanhu Sheng; Shilin Zhao; Mingsheng Guo; Yu Shyr (Int. J. Comput. Biol. Drug Des., 2015)

SWATH-MS in proteomics: current status. - Jing Wang 026; Quanhu Sheng; Yu Shyr (Int. J. Comput. Biol. Drug Des., 2015)

RnaSeqSampleSize: real data based sample size estimation for RNA sequencing. - Shilin Zhao; Chung-I Li; Yan Guo; Quanhu Sheng; Yu Shyr (BMC Bioinform., 2018)

scRNABatchQC: multi-samples quality control for single cell RNA-seq data. - Qi Liu 024; Quanhu Sheng; Jie Ping; Marisol Adelina Ramirez; Ken S. Lau; Robert J. Coffey; Yu Shyr (Bioinform., 2019)

Cancer-specific expression quantitative loci are affected by expression dysregulation. - Quanhu Sheng; David C. Samuels; Hui Yu; Scott Ness; Ying-Yong Zhao; Yan Guo (Briefings Bioinform., 2020)

AnnoGen: annotating genome-wide pragmatic features. - Quanhu Sheng; Hui Yu; Olufunmilola Oyebamiji; Jiandong Wang; Danqian Chen; Scott Ness; Ying-Yong Zhao; Yan Guo (Bioinform., 2020)

Non-canonical RNA-DNA differences and other human genomic features are enriched within very short tandem repeats. - Hui Yu; Shilin Zhao; Scott Ness; Huining Kang; Quanhu Sheng; David C. Samuels; Olufunmilola Oyebamiji; Ying-Yong Zhao; Yan Guo (PLoS Comput. Biol., 2020)