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Concerted effects of heterogeneous nuclear ribonucleoprotein C1/C2 to control vitamin D-directed gene transcription and RNA splicing in human bone cells.
Zhou R, Park JW, Chun RF, Lisse TS, Garcia AJ, Zavala K, Sea JL, Lu ZX, Xu J, Adams JS, Xing Y, Hewison M. Zhou R, et al. Nucleic Acids Res. 2017 Jan 25;45(2):606-618. doi: 10.1093/nar/gkw851. Epub 2016 Sep 26. Nucleic Acids Res. 2017. PMID: 27672039 Free PMC article.
BS69/ZMYND11 reads and connects histone H3.3 lysine 36 trimethylation-decorated chromatin to regulated pre-mRNA processing.
Guo R, Zheng L, Park JW, Lv R, Chen H, Jiao F, Xu W, Mu S, Wen H, Qiu J, Wang Z, Yang P, Wu F, Hui J, Fu X, Shi X, Shi YG, Xing Y, Lan F, Shi Y. Guo R, et al. Mol Cell. 2014 Oct 23;56(2):298-310. doi: 10.1016/j.molcel.2014.08.022. Epub 2014 Sep 25. Mol Cell. 2014. PMID: 25263594 Free PMC article.
Transcriptome-wide landscape of pre-mRNA alternative splicing associated with metastatic colonization.
Lu ZX, Huang Q, Park JW, Shen S, Lin L, Tokheim CJ, Henry MD, Xing Y. Lu ZX, et al. Mol Cancer Res. 2015 Feb;13(2):305-18. doi: 10.1158/1541-7786.MCR-14-0366. Epub 2014 Oct 1. Mol Cancer Res. 2015. PMID: 25274489 Free PMC article.
The contribution of Alu exons to the human proteome.
Lin L, Jiang P, Park JW, Wang J, Lu ZX, Lam MP, Ping P, Xing Y. Lin L, et al. Genome Biol. 2016 Jan 28;17:15. doi: 10.1186/s13059-016-0876-5. Genome Biol. 2016. PMID: 26821878 Free PMC article.
Discover hidden splicing variations by mapping personal transcriptomes to personal genomes.
Stein S, Lu ZX, Bahrami-Samani E, Park JW, Xing Y. Stein S, et al. Nucleic Acids Res. 2015 Dec 15;43(22):10612-22. doi: 10.1093/nar/gkv1099. Epub 2015 Nov 17. Nucleic Acids Res. 2015. PMID: 26578562 Free PMC article.
rMATS: robust and flexible detection of differential alternative splicing from replicate RNA-Seq data.
Shen S, Park JW, Lu ZX, Lin L, Henry MD, Wu YN, Zhou Q, Xing Y. Shen S, et al. Proc Natl Acad Sci U S A. 2014 Dec 23;111(51):E5593-601. doi: 10.1073/pnas.1419161111. Epub 2014 Dec 5. Proc Natl Acad Sci U S A. 2014. PMID: 25480548 Free PMC article.
PrimerSeq: Design and visualization of RT-PCR primers for alternative splicing using RNA-seq data.
Tokheim C, Park JW, Xing Y. Tokheim C, et al. Genomics Proteomics Bioinformatics. 2014 Apr;12(2):105-9. doi: 10.1016/j.gpb.2014.04.001. Epub 2014 Apr 18. Genomics Proteomics Bioinformatics. 2014. PMID: 24747190 Free PMC article.
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