A proteogenomic approach for protein-level evidence of genomic variants in cancer cells

Title
A proteogenomic approach for protein-level evidence of genomic variants in cancer cells
Authors
이철주Kabir Mohammad Humayun염정훈안희성임병호김선영
Issue Date
2016-10
Publisher
Scientific Reports
Citation
VOL 6-35305-9
Abstract
Variations in protein coding sequence may sometimes play important roles in cancer development. However, since variants may not express into proteins due to various cellular quality control systems, it is important to get protein-level evidence of the genomic variations. We present a proteogenomic strategy getting protein-level evidence of genomic variants, which we call sequential targeted LC-MS/MS based on prediction of peptide pI and Retention time (STaLPIR). Our approach shows improved peptide identification, and has the potential for the unbiased analysis of variant sequence as well as corresponding reference sequence. Integrated analysis of DNA, mRNA and protein suggests that protein expression level of the nonsynonymous variant is regulated either before or after translation, according to influence of the variant on protein function. In conclusion, our data provides an excellent approach getting direct evidence for the expression of variant protein forms from genome sequence data.
URI
http://pubs.kist.re.kr/handle/201004/65027
ISSN
2045-2322
Appears in Collections:
KIST Publication > Article
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