Statements in which the resource exists as a subject.
PredicateObject
rdf:type
lifeskim:mentions
pubmed:issue
4
pubmed:dateCreated
2008-4-4
pubmed:abstractText
Proteomic and transcriptomic platforms both play important roles in cancer research, with differing strengths and limitations. Here, we describe a proteo-transcriptomic integrative strategy for discovering novel cancer biomarkers, combining the direct visualization of differentially expressed proteins with the high-throughput scale of gene expression profiling. Using breast cancer as a case example, we generated comprehensive two-dimensional electrophoresis (2DE)/mass spectrometry (MS) proteomic maps of cancer (MCF-7 and HCC-38) and control (CCD-1059Sk) cell lines, identifying 1724 expressed protein spots representing 484 different protein species. The differentially expressed cell-line proteins were then mapped to mRNA transcript databases of cancer cell lines and primary breast tumors to identify candidate biomarkers that were concordantly expressed at the gene expression level. Of the top nine selected biomarker candidates, we reidentified ANX1, a protein previously reported to be differentially expressed in breast cancers and normal tissues, and validated three other novel candidates, CRAB, 6PGL, and CAZ2, as differentially expressed proteins by immunohistochemistry on breast tissue microarrays. In total, close to half (4/9) of our protein biomarker candidates were successfully validated. Our study thus illustrates how the systematic integration of proteomic and transcriptomic data from both cell line and primary tissue samples can prove advantageous for accelerating cancer biomarker discovery.
pubmed:language
eng
pubmed:journal
pubmed:citationSubset
IM
pubmed:chemical
pubmed:status
MEDLINE
pubmed:month
Apr
pubmed:issn
1535-3893
pubmed:author
pubmed:issnType
Print
pubmed:volume
7
pubmed:owner
NLM
pubmed:authorsComplete
Y
pubmed:pagination
1518-28
pubmed:meshHeading
pubmed-meshheading:18318472-Annexin A1, pubmed-meshheading:18318472-Breast Neoplasms, pubmed-meshheading:18318472-CapZ Actin Capping Protein, pubmed-meshheading:18318472-Carboxylic Ester Hydrolases, pubmed-meshheading:18318472-Cell Line, Tumor, pubmed-meshheading:18318472-Computational Biology, pubmed-meshheading:18318472-Electrophoresis, Gel, Two-Dimensional, pubmed-meshheading:18318472-Female, pubmed-meshheading:18318472-Gene Expression Profiling, pubmed-meshheading:18318472-Humans, pubmed-meshheading:18318472-Proteome, pubmed-meshheading:18318472-Proteomics, pubmed-meshheading:18318472-Reproducibility of Results, pubmed-meshheading:18318472-Spectrometry, Mass, Matrix-Assisted Laser..., pubmed-meshheading:18318472-Tissue Array Analysis, pubmed-meshheading:18318472-Tumor Markers, Biological, pubmed-meshheading:18318472-alpha-Crystallin B Chain
pubmed:year
2008
pubmed:articleTitle
Novel breast cancer biomarkers identified by integrative proteomic and gene expression mapping.
pubmed:affiliation
Agenica Research Pte Ltd., National Cancer Centre of Singarope, and Genome Institute of Singapore, 11 Hospital Drive, Singapore 169610.
pubmed:publicationType
Journal Article, Research Support, Non-U.S. Gov't