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Methods Mol Biol. 2011;696:319-26. doi: 10.1007/978-1-60761-987-1_20.

Identification of alternatively spliced transcripts using a proteomic informatics approach.

Author information

1
Center for Computational Medicine and Biology and National Center for Integrative Biomedical Informatics, University of Michigan, Ann Arbor, MI, USA.

Abstract

We present the protocol for the identification of alternatively spliced peptide sequences from tandem mass spectrometry datasets searched using X!Tandem against our modified ECgene resource with all potential translation products and then matched with the Michigan Peptide to Protein Integration (MPPI) scheme. This approach is suitable for human and mouse datasets. Application of the method is illustrated with a study of the Kras activation-Ink4/Arf deletion mouse model of human pancreatic ductal adenocarcinoma.

PMID:
21063957
PMCID:
PMC4123872
DOI:
10.1007/978-1-60761-987-1_20
[Indexed for MEDLINE]
Free PMC Article

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