1. Universidade Federal do Rio Grande do Norte
2. Instituto do Cérebro
3. ICe - Artigos publicados em periódicos

Title:	Identifcation of rare alternative splicing events in MS/MS data reveals a signifcant fraction of alternative translation initiation sites
Authors:	Kroll, José Eduardo Souza, Sandro José de Souza, Gustavo A. de
Keywords:	Alternative splicing events;Mass spectrometry;Peptide identification;Proteomics;Translation initiation sites
Issue Date:	13-Nov-2014
Portuguese Abstract:	Integration of transcriptome data is a crucial step for the identification of rare protein variants in mass-spectrometry (MS) data with important consequences for all branches of biotechnology research. Here, we used Splooce, a database of splicing variants recently developed by us, to search MS data derived from a variety of human tumor cell lines. More than 800 new protein variants were identified whose corresponding MS spectra were specific to protein entries from Splooce. Although the types of splicing variants (exon skipping, alternative splice sites and intron retention) were found at the same frequency as in the transcriptome, we observed a large variety of modifications at the protein level induced by alternative splicing events. Surprisingly, we found that 40% of all protein modifications induced by alternative splicing led to the use of alternative translation initiation sites. Other modifications include frameshifts in the open reading frame and inclusion or deletion of peptide sequences. To make the dataset generated here available to the community in a more effective form, the Splooce portal (http://www.bioinformatics-brazil.org/splooce) was modified to report the alternative splicing events supported by MS data.
URI:	https://repositorio.ufrn.br/jspui/handle/123456789/23223
Appears in Collections:	ICe - Artigos publicados em periódicos

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