Paper Info
Title
TCGASpliceSeq a compendium of alternative mRNA splicing in cancer.
Abstract
TCGA's RNASeq data represent one of the largest collections of cancer transcriptomes ever assembled. RNASeq technology, combined with computational tools like our SpliceSeq package, provides a comprehensive, detailed view of alternative mRNA splicing. Aberrant splicing patterns in cancers have been implicated in such processes as carcinogenesis, de-differentiation and metastasis. TCGA SpliceSeq (http://bioinformatics.mdanderson.org/TCGASpliceSeq) is a web-based resource that provides a quick, user-friendly, highly visual interface for exploring the alternative splicing patterns of TCGA tumors. Percent Spliced In (PSI) values for splice events on samples from 33 different tumor types, including available adjacent normal samples, have been loaded into TCGA SpliceSeq. Investigators can interrogate genes of interest, search for the genes that show the strongest variation between or among selected tumor types, or explore splicing pattern changes between tumor and adjacent normal samples. The interface presents intuitive graphical representations of splicing patterns, read counts and various statistical summaries, including percent spliced in. Splicing data can also be downloaded for inclusion in integrative analyses. TCGA SpliceSeq is freely available for academic, government or commercial use.
Year
DOI
Venue
2016
10.1093/nar/gkv1288
NUCLEIC ACIDS RESEARCH
Field
DocType
Volume
Carcinogenesis,Gene,Compendium,Biology,splice,Transcriptome,Alternative splicing,RNA splicing,Genetics,Molecular biology,Cancer
Journal
44
Issue
ISSN
Citations 
D1
0305-1048
5
PageRank 
References 
Authors
0.51
2
8
Name
Order
Citations
PageRank
Michael Ryan1776.31
Wing Chung Wong2202.01
Robert Brown350.51
Rehan Akbani433116.88
Xiaoping Su5568.05
Bradley M. Broom6404.43
James M. Melott761.20
John N. Weinstein831427.59