Novel breast cancer biomarkers identified by integrative proteomic and gene expression mapping
| Autor: | Ning Huang, Suhaimi Bin Abdul Rashid, Keli Ou, Suet Ying Lee, Sou Yen Soon, Jia Liu, Tetsuo Ichikawa, Osamu Nishimura, Wei Chen, Kun Yu, Xin Pei Goh, Manuel Salto-Tellez, L.K. Tan, Michelle Hooi, Thomas C. Putti, Hiroyuki Jikuya, Patrick Tan, Djohan Kesuma |
|---|---|
| Přispěvatelé: | Ou, Keli, Yu, Kun, Kesuma, Djohan, Hooi, Michelle, Huang, Ning, Chen, Wei, Lee, Suet Ying, Goh, Xin Pei, Tan, Lay keng, Liu, Jia, Soon, Sou Yen, Rashid, Suhaimi Bin Abdul, Putti, Thomas C, Jikuya, Hiroyuki, Ichikawa, Tetsuo, Nishimura, Osamu, Salto-Tellez, Manuel, Tan, Patrick |
| Rok vydání: | 2008 |
| Předmět: |
Proteomics
Proteome Bioinformatics Breast Neoplasms Biology Biochemistry Transcriptome Breast cancer Cell Line Tumor Gene expression medicine Biomarkers Tumor Humans Electrophoresis Gel Two-Dimensional Transcriptomics Annexin A1 Genetics CapZ Actin Capping Protein Gene Expression Profiling Cancer Computational Biology Reproducibility of Results alpha-Crystallin B Chain General Chemistry medicine.disease Gene expression profiling Tissue Array Analysis Spectrometry Mass Matrix-Assisted Laser Desorption-Ionization Integrative genomics Biomarker (medicine) Cancer biomarkers Female Carboxylic Ester Hydrolases |
| Zdroj: | Journal of proteome research. 7(4) |
| ISSN: | 1535-3893 |
| Popis: | 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. Refereed/Peer-reviewed |
| Databáze: | OpenAIRE |
| Externí odkaz: |
|