title: Comparison of normal and breast cancer cell lines using proteome, genome, and interactome data.
abstract: Normal and cancer cell line proteomes were profiled using high throughput mass spectrometry techniques. Application of protein-level and peptide-level sample fractionation combined with LC-MS/MS analysis enabled identification of 2235 unmodified proteins representing a broad range of functional and compartmental classes. An iterative multistep search strategy was used to identify post-translational modifications, revealing several proteins that are preferentially modified in cancer cells. Information regarding both unmodified and modified protein forms was combined with publicly available gene expression and protein-protein interaction data. The resulting integrated dataset revealed several functionally related proteins that are differentially regulated between normal and cancer cell lines.
authors.affiliation: UCSF Comprehensive Cancer Center, University of California-San Francisco, California 94143-0808, USA.
authors.forename: Anil J
authors.initials: AJ
authors.lastname: Patwardhan
authors.forename: Eric F
authors.initials: EF
authors.lastname: Strittmatter
authors.forename: David G
authors.initials: DG
authors.lastname: Camp
authors.forename: Richard D
authors.initials: RD
authors.lastname: Smith
authors.forename: Maria G
authors.initials: MG
authors.lastname: Pallavicini
mesh_terms: D000595:Amino Acid Sequence; D001943:Breast Neoplasms / Q000473:pathology*; D002460:Cell Line; D045744:Cell Line, Tumor; D002462:Cell Membrane / Q000378:metabolism; D002853:Chromatography, Liquid; D016000:Cluster Analysis; D030562:Databases, Protein; D015972:Gene Expression Regulation, Neoplastic; D023281:Genomics / Q000379:methods*; D006801:Humans; D013058:Mass Spectrometry; D008660:Metabolism; D008969:Molecular Sequence Data; D010449:Peptide Mapping; D010455:Peptides / Q000737:chemistry; D040081:Protein Array Analysis; D011485:Protein Binding; D011499:Protein Processing, Post-Translational; D011506:Proteins / Q000737:chemistry; D040901:Proteomics / Q000379:methods*
chemical_list: D010455:Peptides; D011506:Proteins