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

doi:10.1021/pr300906y

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 journal › Article › peer-review

8 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 language	English
Pages (from-to)	89-96
Number of pages	8
Journal	Journal of Proteome Research
Volume	12
Issue number	1
DOIs	https://doi.org/10.1021/pr300906y
Publication status	Published - 4 Jan 2013

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10.1021/pr300906y

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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.",

author = "Susan Fanayan and Smith, {Joshua T.} and Sethi, {Manveen K.} and David Cantor and Robert Goode and Simpson, {Richard J.} and Baker, {Mark S.} and Hancock, {William S.} and Edouard Nice",

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AU - Fanayan, Susan

AU - Smith, Joshua T.

AU - Sethi, Manveen K.

AU - Cantor, David

AU - Goode, Robert

AU - Simpson, Richard J.

AU - Baker, Mark S.

AU - Hancock, William S.

AU - Nice, Edouard

PY - 2013/1/4

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AB - 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.

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

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