Abstract:
:Identifying protein-coding genes in eukaryotic genomes remains a challenge in post-genome era due to the complex gene models. We applied a proteogenomics strategy to detect un-annotated protein-coding regions in mouse genome. High-accuracy tandem mass spectrometry (MS/MS) data from diverse mouse samples were generated by LTQ-Orbitrap mass spectrometer in house. Two searchable diagnostic proteomic datasets were constructed, one with all possible encoding exon junctions, and the other with all putative encoding exons, for the discovery of novel exon splicing events and novel uninterrupted protein-coding regions. Altogether 29,586 unique peptides were identified. Aligning backwards to the mouse genome, the translation of 4471 annotated genes was validated by the known peptides; and 172 genic events were defined in mouse genome by the novel peptides. The approach in the current work can provide substantial evidences for eukaryote genome annotation in encoding genes.
journal_name
Genomicsjournal_title
Genomicsauthors
Xing XB,Li QR,Sun H,Fu X,Zhan F,Huang X,Li J,Chen CL,Shyr Y,Zeng R,Li YX,Xie Ldoi
10.1016/j.ygeno.2011.07.005subject
Has Abstractpub_date
2011-11-01 00:00:00pages
343-51issue
5eissn
0888-7543issn
1089-8646pii
S0888-7543(11)00178-9journal_volume
98pub_type
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