Characterization and prediction of alternative splice sites
Characterization and prediction of alternative splice sites
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DOI：
10.1016/j.gene.2005.07.015
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发表时间：
2006-02-01
期刊：
影响因子：
3.5
通讯作者：
Marín, A
中科院分区：
文献类型：
--
作者：
Wang, M;Marín, A
分析了ALTEXTRON数据库中的人替代亚型、隐蔽、跳跃和组成型剪接位点的剪接位点强度、组成、GC含量、位置和多聚嘧啶段和分支位点的结合位点强度。确定了几个特征，区分替代异构体和隐蔽剪接位点，但不是跳过剪接位点前组成的。这些包括剪接位点强度、内含子GC含量、U2 AF（35）结合位点评分和寡核苷酸频率。对于剪接位点的预测分类，使用反向传播网络将不同剪接因子结合位点的模式识别模型和寡核苷酸频率模型（OFM）相结合。67.45%的受体位点和71.23%的供体位点被训练用于组成型和替代异构体/隐蔽剪接位点分类的网络正确分类。用于预测可变剪接位点的网络应用程序可在http://es.embnet.org/similar到mwang/assp.html上获得。(c)2005 Elsevier B. V.保留所有权利。
Human alternative isoform, cryptic, skipped, and constitutive splice sites from the ALTEXTRON database were analysed regarding splice site strength, composition, GC content, position and binding site strength of polypyrimidine tract and branch site. Several features were identified which distinguish alternative isoform and cryptic splice sites, but not skipped splice sites front constitutive ones. These include splice site strength, introns GC content, U2AF(35) binding site score, and oligonucleotide frequencies. For the predictive classification of splice sites, pattern recognition models for different splicing factor binding sites and oligonucleotide frequency models (OFMs) were combined using backpropagation networks. 67.45% of acceptor sites and 71.23% of donor sites are correctly classified by networks trained for classification of constitutive and alternative isoform/cryptic splice sites. A web-application for the prediction of alternative splice sites is available at http://es.embnet.org/similar to mwang/assp.html. (c) 2005 Elsevier B.V. All rights reserved.