SpliceSeq: A resource for analysis and visualization of RNA-Seq data on alternative splicing and its functional impacts

Bioinformatics

Volumn 28, Issue 18, 2012, Pages 2385-2387

  Ryan, Michael C ^a   Cleland, James ^a   Kim, RyangGuk ^a   Wong, Wing Chung ^a   Weinstein, John N ^b  

^a In Silico Solutions   (United States)

^b UNIVERSITY OF TEXAS MD ANDERSON CANCER CENTER   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ALGORITHM; ALTERNATIVE RNA SPLICING; ARTICLE; COMPUTER GRAPHICS; COMPUTER PROGRAM; METHODOLOGY; SEQUENCE ANALYSIS;

ALGORITHMS; ALTERNATIVE SPLICING; COMPUTER GRAPHICS; SEQUENCE ANALYSIS, RNA; SOFTWARE;

EID: 84866464012     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/bts452     Document Type: Article

References (7)

1. Kahn,A.B. et al. (2007) SpliceMiner: a high-throughput database implementation of the NCBI Evidence Viewer for microarray splice variant analysis. BMC Bioinformatics, 8, 75.
2. Katz,Y. et al. (2010) Analysis and design of RNA sequencing experiments for identifying isoform regulation. Nat. Methods, 7, 1009-15.
3. Langmead,B. et al. (2009) Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol., 10, R25.
4. Ryan,M.C. et al. (2008) SpliceCenter: a suite of web-based bioinformatic applications for evaluating the impact of alternative splicing on RT-PCR, RNAi, microarray, and peptide-based studies. BMC Bioinformatics, 9, 313.
5. Trapnell,C. et al. (2012) Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks. Nat. Protoc., 7, 562-578.
6. Wang,E.T. et al. (2008) Alternative isoform regulation in human tissue transcriptomes. Nature, 456, 470-476.
7. Xing,Y. et al. (2004) The multiassembly problem: reconstructing multiple transcripts isoforms from EST fragment mixtures. Genome Res., 14, 426-441.