|Professor, Integrative Biology and Physiology|
|Member, Bioinformatics GPB Home Area, Gene Regulation GPB Home Area, JCCC Gene Regulation Program Area, Molecular, Cellular & Integrative Physiology GPB Home Area|
Hsiao Yun-Hua Esther, Bahn Jae Hoon, Lin Xianzhi, Chan Tak-Ming, Wang Rena, Xiao Xinshu Alternative splicing modulated by genetic variants demonstrates accelerated evolution regulated by highly conserved proteins. Genome research. 2016; 26(4): 440-50.
Cass Ashley A, Bahn Jae Hoon, Lee Jae-Hyung, Greer Christopher, Lin Xianzhi, Kim Yong, Hsiao Yun-Hua Esther, Xiao Xinshu Global analyses of endonucleolytic cleavage in mammals reveal expanded repertoires of cleavage-inducing small RNAs and their targets. Nucleic acids research. 2016; 44(7): 3253-63.
Fuxjager Matthew J, Lee Jae-Hyung, Chan Tak-Ming, Bahn Jae Hoon, Chew Jenifer G, Xiao Xinshu, Schlinger Barney A Research Resource: Hormones, Genes, and Athleticism: Effect of Androgens on the Avian Muscular Transcriptome. Molecular endocrinology (Baltimore, Md.). 2016; 30(2): 254-71.
Gao Chen, Ren Shuxun, Lee Jae-Hyung, Qiu Jinsong, Chapski Douglas J, Rau Christoph D, Zhou Yu, Abdellatif Maha, Nakano Astushi, Vondriska Thomas M, Xiao Xinshu, Fu Xiang-Dong, Chen Jau-Nian, Wang Yibin RBFox1-mediated RNA splicing regulates cardiac hypertrophy and heart failure. The Journal of clinical investigation. 2016; 126(1): 195-206.
Bhate Amruta, Parker Darren J, Bebee Thomas W, Ahn Jaegyoon, Arif Waqar, Rashan Edrees H, Chorghade Sandip, Chau Anthony, Lee Jae-Hyung, Anakk Sayeepriyadarshini, Carstens Russ P, Xiao Xinshu, Kalsotra Auinash ESRP2 controls an adult splicing programme in hepatocytes to support postnatal liver maturation. Nature communications. 2015; 6(24): 8768.
Ahn Jaegyoon, Xiao Xinshu RASER: reads aligner for SNPs and editing sites of RNA. Bioinformatics (Oxford, England). 2015; 31(24): 3906-13.
Zhang Qing, Xiao Xinshu Genome sequence-independent identification of RNA editing sites. Nature methods. 2015; 12(4): 347-50.
Bahn Jae Hoon, Ahn Jaegyoon, Lin Xianzhi, Zhang Qing, Lee Jae-Hyung, Civelek Mete, Xiao Xinshu Genomic analysis of ADAR1 binding and its involvement in multiple RNA processing pathways. Nature communications. 2015; 6(6): 6355.
Li Ziwei, Yu Juehua, Hosohama Linzi, Nee Kevin, Gkountela Sofia, Chaudhari Sonal, Cass Ashley A, Xiao Xinshu, Clark Amander T The Sm protein methyltransferase PRMT5 is not required for primordial germ cell specification in mice. The EMBO journal. 2015; 34(6): 748-58.
Lin Xianzhi, Lo Hsien-Chun, Wong David T W, Xiao Xinshu Noncoding RNAs in human saliva as potential disease biomarkers. Frontiers in genetics. 2015; 6(1): 175.
Romay Milagros C, Che Nam, Becker Scott N, Pouldar Delila, Hagopian Raffi, Xiao Xinshu, Lusis Aldons J, Berliner Judith A, Civelek Mete Regulation of NF-ÎºB signaling by oxidized glycerophospholipid and IL-1Î² induced miRs-21-3p and -27a-5p in human aortic endothelial cells. Journal of lipid research. 2015; 56(1): 38-50.
Bahn Jae Hoon, Zhang Qing, Li Feng, Chan Tak-Ming, Lin Xianzhi, Kim Yong, Wong David T W, Xiao Xinshu The landscape of microRNA, Piwi-interacting RNA, and circular RNA in human saliva. Clinical chemistry. 2015; 61(1): 221-30.
Xu Yilin, Gao Xin D, Lee Jae-Hyung, Huang Huilin, Tan Haiyan, Ahn Jaegyoon, Reinke Lauren M, Peter Marcus E, Feng Yue, Gius David, Siziopikou Kalliopi P, Peng Junmin, Xiao Xinshu, Cheng Chonghui Cell type-restricted activity of hnRNPM promotes breast cancer metastasis via regulating alternative splicing. Genes & development. 2014; 28(11): 1191-203.
Xiao Xinshu Grace, Touma Marlin, Wang Yibin Decoding the noncoding transcripts in human heart failure. Circulation. 2014; 129(9): 958-60.
Lee Jae-Hyung, Ang Jason K, Xiao Xinshu Analysis and design of RNA sequencing experiments for identifying RNA editing and other single-nucleotide variants. RNA (New York, N.Y.). 2013; 19(6): 725-32.
Chan Tak-Ming, Lo Leung-Yau, Sze-To Ho-Yin, Leung Kwong-Sak, Xiao Xinshu, Wong Man-Hon Modeling associated protein-DNA pattern discovery with unified scores. IEEE/ACM transactions on computational biology and bioinformatics / IEEE, ACM. 2013; 10(3): 696-707.
Wang Yang, Xiao Xinshu, Zhang Jianming, Choudhury Rajarshi, Robertson Alex, Li Kai, Ma Meng, Burge Christopher B, Wang Zefeng A complex network of factors with overlapping affinities represses splicing through intronic elements. Nature structural & molecular biology. 2013; 20(1): 36-45.
Bass Brenda, Hundley Heather, Li Jin Billy, Peng Zhiyu, Pickrell Joe, Xiao Xinshu Grace, Yang Li The difficult calls in RNA editing. Interviewed by H Craig Mak. Nature biotechnology. 2012; 30(12): 1207-9.
Wang Yang, Ma Meng, Xiao Xinshu, Wang Zefeng Intronic splicing enhancers, cognate splicing factors and context-dependent regulation rules. Nature structural & molecular biology. 2012; 19(10): 1044-52.
Anderson Erik S, Lin Chia-Ho, Xiao Xinshu, Stoilov Peter, Burge Christopher B, Black Douglas L The cardiotonic steroid digitoxin regulates alternative splicing through depletion of the splicing factors SRSF3 and TRA2B. RNA (New York, N.Y.). 2012; 18(5): 1041-9.
Li Gang, Bahn Jae Hoon, Lee Jae-Hyung, Peng Guangdun, Chen Zugen, Nelson Stanley F, Xiao Xinshu Identification of allele-specific alternative mRNA processing via transcriptome sequencing. Nucleic acids research. 2012; 18(5): .
Bahn Jae Hoon, Lee Jae-Hyung, Li Gang, Greer Christopher, Peng Guangdun, Xiao Xinshu Accurate identification of A-to-I RNA editing in human by transcriptome sequencing. Genome research. 2012; 22(1): 142-50.
Gomez Gustavo, Lee Jae-Hyung, Veldman Matthew B, Lu Jing, Xiao Xinshu, Lin Shuo Identification of vascular and hematopoietic genes downstream of etsrp by deep sequencing in zebrafish. PloS one. 2012; 7(3): e31658.
Lee Jae-Hyung, Gao Chen, Peng Guangdun, Greer Christopher, Ren Shuxun, Wang Yibin, Xiao Xinshu Analysis of transcriptome complexity through RNA sequencing in normal and failing murine hearts. Circulation research. 2011; 109(12): 1332-41.
Xiao Xinshu, Lee Jae-Hyung Systems analysis of alternative splicing and its regulation. Wiley interdisciplinary reviews. Systems biology and medicine. 2011; 2(5): 550-65.
Puppione Donald L, Ryan Christopher M, Bassilian Sara, Souda Puneet, Xiao Xinshu, Ryder Oliver A, Whitelegge Julian P Detection of two distinct forms of apoC-I in great apes. Comparative biochemistry and physiology. Part D, Genomics & proteomics. 2010; 5(1): 73-9.
Xiao X, Wang Z, Jang M, Nutiu R, Wang ET, Burge CB Splice site strength-dependent activity and genetic buffering by poly-G runs. Nature Structural & Molecular Biology 2009; 16(10): 1094-1100.
Kalsotra Auinash, Xiao Xinshu, Ward Amanda J, Castle John C, Johnson Jason M, Burge Christopher B, Cooper Thomas A A postnatal switch of CELF and MBNL proteins reprograms alternative splicing in the developing heart. Proceedings of the National Academy of Sciences of the United States of America. 2008; 105(51): 20333-8.
Xiao Xinshu, Wang Zefeng, Jang Minyoung, Burge Christopher B Coevolutionary networks of splicing cis-regulatory elements. Proceedings of the National Academy of Sciences of the United States of America. 2007; 104(47): 18583-8.
Calarco John A, Xing Yi, Cáceres Mario, Calarco Joseph P, Xiao Xinshu, Pan Qun, Lee Christopher, Preuss Todd M, Blencowe Benjamin J Global analysis of alternative splicing differences between humans and chimpanzees. Genes & development. 2007; 21(22): 2963-75.
Stadler Michael B, Shomron Noam, Yeo Gene W, Schneider Aniket, Xiao Xinshu, Burge Christopher B Inference of splicing regulatory activities by sequence neighborhood analysis. PLoS genetics. 2006; 2(11): e191.
Xiao Xinshu, Mukkamala Ramakrishna, Cohen Richard J A weighted-principal component regression method for the identification of physiologic systems. IEEE transactions on bio-medical engineering. 2006; 53(8): 1521-30.
Wang Zefeng, Xiao Xinshu, Van Nostrand Eric, Burge Christopher B General and specific functions of exonic splicing silencers in splicing control. Molecular cell. 2006; 23(1): 61-70.
Xiao Xinshu, Mullen Thomas J, Mukkamala Ramakrishna System identification: a multi-signal approach for probing neural cardiovascular regulation. Physiological measurement. 2005; 26(3): R41-71.
Xiao Xinshu, Li Ying, Mukkamala Ramakrishna A model order selection criterion with applications to cardio-respiratory-renal systems. IEEE transactions on bio-medical engineering. 2005; 52(3): 445-53.