APPRIS: annotation of principal and alternative splice isoforms

被引：156

作者：

Manuel Rodriguez, Jose ^{[1
]}

Maietta, Paolo ^{[2
]}

Ezkurdia, Iakes ^{[2
]}

Pietrelli, Alessandro ^{[1
]}

Wesselink, Jan-Jaap ^{[2
]}

Lopez, Gonzalo ^{[2
]}

Valencia, Alfonso ^{[1
,2
]}

Tress, Michael L. ^{[2
]}

机构：

[1] Spanish Natl Canc Res Ctr CNIO, Spanish Natl Bioinformat Inst INB, Madrid 28029, Spain

[2] Spanish Natl Canc Res Ctr CNIO, Struct Biol & Biocomp Programme, Madrid 28029, Spain

来源：

NUCLEIC ACIDS RESEARCH | 2013年 / 41卷 / D1期

关键词：

PROTEIN ISOFORMS; DATABASE; PREDICTION; PROTEOMICS; RNA; SEQUENCES; ALIGNMENT; TOPOLOGY; GENOME; DECAY;

D O I：

10.1093/nar/gks1058

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

Here, we present APPRIS (http://appris.bioinfo.cnio.es), a database that houses annotations of human splice isoforms. APPRIS has been designed to provide value to manual annotations of the human genome by adding reliable protein structural and functional data and information from cross-species conservation. The visual representation of the annotations provided by APPRIS for each gene allows annotators and researchers alike to easily identify functional changes brought about by splicing events. In addition to collecting, integrating and analyzing reliable predictions of the effect of splicing events, APPRIS also selects a single reference sequence for each gene, here termed the principal isoform, based on the annotations of structure, function and conservation for each transcript. APPRIS identifies a principal isoform for 85% of the protein-coding genes in the GENCODE 7 release for ENSEMBL. Analysis of the APPRIS data shows that at least 70% of the alternative (non-principal) variants would lose important functional or structural information relative to the principal isoform.

引用

页码：D110 / D117

页数：8

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