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Shihao Shen
Shihao Shen
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Year
rMATS: robust and flexible detection of differential alternative splicing from replicate RNA-Seq data
S Shen, JW Park, Z Lu, L Lin, MD Henry, YN Wu, Q Zhou, Y Xing
Proceedings of the National Academy of Sciences 111 (51), E5593-E5601, 2014
18992014
An ESRP‐regulated splicing programme is abrogated during the epithelial–mesenchymal transition
CC Warzecha, P Jiang, K Amirikian, KA Dittmar, H Lu, S Shen, W Guo, ...
The EMBO journal 29 (19), 3286-3300, 2010
4072010
Nonallele-specific silencing of mutant and wild-type huntingtin demonstrates therapeutic efficacy in Huntington's disease mice
RL Boudreau, JL McBride, I Martins, S Shen, Y Xing, BJ Carter, ...
Molecular Therapy 17 (6), 1053-1063, 2009
3992009
MATS: a Bayesian framework for flexible detection of differential alternative splicing from RNA-Seq data
S Shen, JW Park, J Huang, KA Dittmar, Z Lu, Q Zhou, RP Carstens, Y Xing
Nucleic acids research 40 (8), e61-e61, 2012
3632012
The epithelial splicing factors ESRP1 and ESRP2 positively and negatively regulate diverse types of alternative splicing events
CC Warzecha, S Shen, Y Xing, RP Carstens
RNA biology 6 (5), 546-562, 2009
2412009
Widespread establishment and regulatory impact of Alu exons in human genes
S Shen, L Lin, JJ Cai, P Jiang, EJ Kenkel, MR Stroik, S Sato, BL Davidson, ...
Proceedings of the National Academy of Sciences 108 (7), 2837-2842, 2011
1492011
Genome-wide determination of a broad ESRP-regulated posttranscriptional network by high-throughput sequencing
KA Dittmar, P Jiang, JW Park, K Amirikian, J Wan, S Shen, Y Xing, ...
Molecular and cellular biology 32 (8), 1468-1482, 2012
1462012
Diverse splicing patterns of exonized Alu elements in human tissues
L Lin, S Shen, A Tye, JJ Cai, P Jiang, BL Davidson, Y Xing
PLoS genetics 4 (10), e1000225, 2008
1292008
MADS: a new and improved method for analysis of differential alternative splicing by exon-tiling microarrays
Y Xing, P Stoilov, K Kapur, A Han, H Jiang, S Shen, DL Black, WH Wong
Rna 14 (8), 1470-1479, 2008
1172008
Transcriptome sequencing reveals aberrant alternative splicing in Huntington's disease
L Lin, JW Park, S Ramachandran, Y Zhang, YT Tseng, S Shen, ...
Human molecular genetics 25 (16), 3454-3466, 2016
1092016
SURVIV for survival analysis of mRNA isoform variation
S Shen, Y Wang, C Wang, YN Wu, Y Xing
Nature communications 7 (1), 11548, 2016
982016
Identifying differential alternative splicing events from RNA sequencing data using RNASeq-MATS
JW Park, C Tokheim, S Shen, Y Xing
Deep sequencing data analysis, 171-179, 2013
772013
The nuclear experience of CPEB: implications for RNA processing and translational control
CL Lin, V Evans, S Shen, Y Xing, JD Richter
Rna 16 (2), 338-348, 2010
712010
Transcriptome-wide landscape of pre-mRNA alternative splicing associated with metastatic colonization
Z Lu, Q Huang, JW Park, S Shen, L Lin, CJ Tokheim, MD Henry, Y Xing
Molecular Cancer Research 13 (2), 305-318, 2015
702015
Evolution of alternative splicing in primate brain transcriptomes
L Lin, S Shen, P Jiang, S Sato, BL Davidson, Y Xing
Human molecular genetics 19 (15), 2958-2973, 2010
612010
Population and allelic variation of A-to-I RNA editing in human transcriptomes
E Park, J Guo, S Shen, L Demirdjian, YN Wu, L Lin, Y Xing
Genome biology 18, 1-15, 2017
512017
The RNA binding protein RBM38 (RNPC1) regulates splicing during late erythroid differentiation
LA Heinicke, B Nabet, S Shen, P Jiang, S van Zalen, B Cieply, JE Russell, ...
PloS one 8 (10), e78031, 2013
472013
MADS+: discovery of differential splicing events from Affymetrix exon junction array data
S Shen, CC Warzecha, RP Carstens, Y Xing
Bioinformatics 26 (2), 268-269, 2010
422010
Large-scale analysis of exonized mammalian-wide interspersed repeats in primate genomes
L Lin, P Jiang, S Shen, S Sato, BL Davidson, Y Xing
Human molecular genetics 18 (12), 2204-2214, 2009
342009
rMATS-DVR: rMATS discovery of differential variants in RNA
J Wang, Y Pan, S Shen, L Lin, Y Xing
Bioinformatics 33 (14), 2216-2217, 2017
272017
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