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J Proteome Res. 2013 Jan 4;12(1):89-96. doi: 10.1021/pr300906y. Epub 2012 Dec 18.

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

Author information

1
Department of Chemistry and Biomolecular Sciences, Macquarie University, Sydney, NSW 2109, Australia.

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.

PMID:
23244008
DOI:
10.1021/pr300906y
[Indexed for MEDLINE]

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