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

Michael C. Ryan; James Cleland; Ryang Guk Kim; Wing Chung Wong; John N. Weinstein

doi:10.1093/bioinformatics/bts452

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

Michael C. Ryan, James Cleland, Ryang Guk Kim, Wing Chung Wong, John N. Weinstein

Bioinformatics & Computational Biology

Research output: Contribution to journal › Article › peer-review

165 Scopus citations

Abstract

Summary: SpliceSeq is a resource for RNA-Seq data that provides a clear view of alternative splicing and identifies potential functional changes that result from splice variation. It displays intuitive visualizations and prioritized lists of results that highlight splicing events and their biological consequences. SpliceSeq unambiguously aligns reads to gene splice graphs, facilitating accurate analysis of large, complex transcript variants that cannot be adequately represented in other formats.

Original language	English (US)
Article number	bts452
Pages (from-to)	2385-2387
Number of pages	3
Journal	Bioinformatics
Volume	28
Issue number	18
DOIs	https://doi.org/10.1093/bioinformatics/bts452
State	Published - Sep 2012

ASJC Scopus subject areas

Statistics and Probability
Biochemistry
Molecular Biology
Computer Science Applications
Computational Theory and Mathematics
Computational Mathematics

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

abstract = "Summary: SpliceSeq is a resource for RNA-Seq data that provides a clear view of alternative splicing and identifies potential functional changes that result from splice variation. It displays intuitive visualizations and prioritized lists of results that highlight splicing events and their biological consequences. SpliceSeq unambiguously aligns reads to gene splice graphs, facilitating accurate analysis of large, complex transcript variants that cannot be adequately represented in other formats.",

author = "Ryan, {Michael C.} and James Cleland and Kim, {Ryang Guk} and Wong, {Wing Chung} and Weinstein, {John N.}",

note = "Funding Information: Funding: Supported in part by Grant #U24CA143883 from the U.S. National Cancer Institute (UT-MD Anderson TCGA Genome Data Analysis Center), by a grant from the Michael and Susan Dell Foundation (honoring Lorraine Dell) and by generous gifts from the H.A. and Mary K. Chapman Foundation and an anonymous donor.",

year = "2012",

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doi = "10.1093/bioinformatics/bts452",

language = "English (US)",

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AU - Cleland, James

AU - Kim, Ryang Guk

AU - Wong, Wing Chung

AU - Weinstein, John N.

N1 - Funding Information: Funding: Supported in part by Grant #U24CA143883 from the U.S. National Cancer Institute (UT-MD Anderson TCGA Genome Data Analysis Center), by a grant from the Michael and Susan Dell Foundation (honoring Lorraine Dell) and by generous gifts from the H.A. and Mary K. Chapman Foundation and an anonymous donor.

PY - 2012/9

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N2 - Summary: SpliceSeq is a resource for RNA-Seq data that provides a clear view of alternative splicing and identifies potential functional changes that result from splice variation. It displays intuitive visualizations and prioritized lists of results that highlight splicing events and their biological consequences. SpliceSeq unambiguously aligns reads to gene splice graphs, facilitating accurate analysis of large, complex transcript variants that cannot be adequately represented in other formats.

AB - Summary: SpliceSeq is a resource for RNA-Seq data that provides a clear view of alternative splicing and identifies potential functional changes that result from splice variation. It displays intuitive visualizations and prioritized lists of results that highlight splicing events and their biological consequences. SpliceSeq unambiguously aligns reads to gene splice graphs, facilitating accurate analysis of large, complex transcript variants that cannot be adequately represented in other formats.

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

Abstract

ASJC Scopus subject areas

MD Anderson CCSG core facilities

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