title: Chromosome 7-centric analysis of proteomics data from a panel of human colon carcinoma cell lines.
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.
authors.affiliation: Department of Chemistry and Biomolecular Sciences, Macquarie University, Sydney, NSW 2109, Australia.
authors.forename: Susan
authors.initials: S
authors.lastname: Fanayan
authors.forename: Joshua T
authors.initials: JT
authors.lastname: Smith
authors.forename: Manveen K
authors.initials: MK
authors.lastname: Sethi
authors.forename: David
authors.initials: D
authors.lastname: Cantor
authors.forename: Robert
authors.initials: R
authors.lastname: Goode
authors.forename: Richard J
authors.initials: RJ
authors.lastname: Simpson
authors.forename: Mark S
authors.initials: MS
authors.lastname: Baker
authors.forename: William S
authors.initials: WS
authors.lastname: Hancock
authors.forename: Edouard
authors.initials: E
authors.lastname: Nice
mesh_terms: D002277:Carcinoma / Q000235:genetics / Q000378:metabolism; D045744:Cell Line, Tumor; D002872:Chromosome Deletion; D002897:Chromosomes, Human, Pair 7 / Q000235:genetics / Q000378:metabolism; D003110:Colonic Neoplasms / Q000235:genetics / Q000378:metabolism; D030562:Databases, Protein; D015894:Genome, Human; D016045:Human Genome Project; D006801:Humans; D011506:Proteins / Q000145:classification / Q000235:genetics / Q000378:metabolism; D020543:Proteome
chemical_list: D011506:Proteins; D020543:Proteome