Annotation of Non-Synonymous Single Polymorphisms in Human Liver Proteome by Mass Spectrometry

Author(s): Ming Chen, Bing Yang, Wantao Ying, Fuchu He, Xiaohong Qian.

Journal Name: Protein & Peptide Letters

Volume 17 , Issue 3 , 2010

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Abstract:

A novel strategy to annotate nsSNP-peptides in human liver proteome based on LC-ESI-MS/MS and peptide database search was proposed. Totally 115 nsSNP-peptides in human liver proteins were annotated using our method. Among them, 42 peptides were found to be amino acid mutation, 73 peptides were wild type, 5 peptides were interpreted with both mutation and wild type. The function of nsSNP-peptide was predicted using SIFT algorithm, and 2 nsSNPs were predicted to be damaged for protein function. The results here show that the strategy is very effective for annotation of nsSNP at peptide level.

Keywords: Liquid chromatography-tandem mass spectrometry, liver proteins, nsSNP, peptide database, SIFT

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Article Details

VOLUME: 17
ISSUE: 3
Year: 2010
Page: [277 - 286]
Pages: 10
DOI: 10.2174/092986610790780242
Price: $65

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