Comparison of normal and breast cancer cell lines using proteome, genome, and interactome data.
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.
Patwardhan
Anil J
AJ
UCSF Comprehensive Cancer Center, University of California-San Francisco, California 94143-0808, USA.
Strittmatter
Eric F
EF
Camp
David G
DG
Smith
Richard D
RD
Pallavicini
Maria G
MG
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*
D010455:Peptides; D011506:Proteins