The database dbEST correctly predicts gene expression in colon cancer patients
| Autor: | Beatrice L. Pool-Zobel, Mariya Radeva, K. K. Richter, Thomas Hofmann, B. Altenberg, Karl Otto Greulich, H. Mothes |
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| Rok vydání: | 2008 |
| Předmět: |
Colorectal cancer
Normal colon Pharmaceutical Science Biology computer.software_genre Bioinformatics Sensitivity and Specificity Text mining Gene expression medicine Biomarkers Tumor Humans Diagnosis Computer-Assisted Databases Protein Gene Database business.industry Gene Expression Profiling Cancer Reproducibility of Results medicine.disease Neoplasm Proteins Gene Expression Regulation Neoplastic Colonic Neoplasms DNA microarray business computer Biotechnology |
| Zdroj: | Current pharmaceutical biotechnology. 9(6) |
| ISSN: | 1873-4316 |
| Popis: | This study aims to test the predictive power of gene expression data derived from NIH's database dbEST, which collects gene expression results from a large number and variety of DNA array experiments. The motivation of this study is to make comparable experimental studies, which are usually performed only for one or a few tissues or organs, with a wide variety of other tissues. Confirmation of a good predictive power of dbEST would put a number of interesting and partially surprising recent findings, solely based on data mining, on a more solid basis than available so far. The expression of nine genes (eIF4E, DDX6, HAT1, USP28, HSP90 , PKM2, PLK1, COX2 and OPN) plus two calibra- tion genes in paired normal and cancer colon tissues of eight individual patients was investigated by quantitative RT-PCR and compared with the predictions made by the data - base. GUS and -actin reveal only little variation among different patients, making them good internal calibration standards. In normal colon tissue, data mining correctly predicts the ex- pression of all nine genes, which covers two orders of magnitude. In cancer, dbEST is somewhat less precise, but still valuable for the comparison with clinical results. |
| Databáze: | OpenAIRE |
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