Publications

1. Tran SS, Zhou Q, Xiao X. Statistical inference of differential RNA-editing sites from RNA-sequencing data by hierarchical modeling.. Bioinformatics (Oxford, England), 2020.
2. Shen S, Park JW, Lu ZX, Lin L, Henry MD, Wu YN, Zhou Q, Xing Y. rMATS: robust and flexible detection of differential alternative splicing from replicate RNA-Seq data.. Proceedings of the National Academy of Sciences of the United States of America, 2014.
3. Mason MJ, Plath K, Zhou Q. Identification of context-dependent motifs by contrasting ChIP binding data.. Bioinformatics (Oxford, England), 2010.
4. Ouyang Z, Zhou Q, Wong WH. ChIP-Seq of transcription factors predicts absolute and differential gene expression in embryonic stem cells.. Proceedings of the National Academy of Sciences of the United States of America, 2009.
5. Sridharan R, Tchieu J, Mason MJ, Yachechko R, Kuoy E, Horvath S, Zhou Q, Plath K. Role of the murine reprogramming factors in the induction of pluripotency.. Cell, 2009.
6. Zhou Q, Liu JS. Extracting sequence features to predict protein-DNA interactions: a comparative study.. Nucleic acids research, 2008.
7. Zhou Q, Chipperfield H, Melton DA, Wong WH. A gene regulatory network in mouse embryonic stem cells.. Proceedings of the National Academy of Sciences of the United States of America, 2007.
8. Johnson DS, Zhou Q, Yagi K, Satoh N, Wong W, Sidow A. De novo discovery of a tissue-specific gene regulatory module in a chordate.. Genome research, 2005.
9. Zhou Q, Wong WH. CisModule: de novo discovery of cis-regulatory modules by hierarchical mixture modeling.. Proceedings of the National Academy of Sciences of the United States of America, 2004.
10. Zhou Q, Liu JS. Modeling within-motif dependence for transcription factor binding site predictions.. Bioinformatics (Oxford, England), 2004.