Chromosome 7-centric analysis of proteomics data from a panel of human colon carcinoma cell lines

Susan Fanayan, Joshua T. Smith, Manveen K. Sethi, David Cantor, Robert Goode, Richard J. Simpson, Mark S. Baker, William S. Hancock*, Edouard Nice

*Corresponding author for this work

Research output: Contribution to journalArticle

6 Citations (Scopus)

Abstract

In this manuscript, we describe a shotgun proteomics approach for a comprehensive proteomic analysis of samples including total lysates, membrane, secretome, and exosome fractions from a panel of colorectal cancer cell lines. We will present an analysis of our proteomics data in two alternative formats. First we will discuss a traditional analysis of our data, in which we identify a number of cancer-associated proteins using various proteomic data analysis tools. In a second approach, we use a chromosome format to organize the proteomic data on chromosome 7, allowing the identification of clusters of cancer-associated genes with boundaries defined by physical proximity on different chromosomes.

Original languageEnglish
Pages (from-to)89-96
Number of pages8
JournalJournal of Proteome Research
Volume12
Issue number1
DOIs
Publication statusPublished - 4 Jan 2013

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