Molecular Concepts Analysis Links Tumors, Pathways, Mechanisms, and Drugs
| Autor: | Daniel R. Rhodes, Sooryanarayana Varambally, Shanker Kalyana-Sundaram, Radhika Varambally, Terrence R. Barrette, Arul M. Chinnaiyan, Nicole Kasper, Scott A. Tomlins, Debashis Ghosh, Vasudeva Mahavisno |
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| Jazyk: | angličtina |
| Předmět: |
Cancer Research
Response to therapy Gene regulatory network Computational biology Biology lcsh:RC254-282 gene expression signature 03 medical and health sciences 0302 clinical medicine Breast cancer Protein Annotation Gene expression medicine Gene 030304 developmental biology Genetic association Cancer Genetics 0303 health sciences oncomine bioinformatics medicine.disease lcsh:Neoplasms. Tumors. Oncology. Including cancer and carcinogens 3. Good health Gene expression profiling 030220 oncology & carcinogenesis network |
| Zdroj: | Neoplasia: An International Journal for Oncology Research, Vol 9, Iss 5, Pp 443-454 (2007) |
| ISSN: | 1476-5586 |
| DOI: | 10.1593/neo.07292 |
| Popis: | Global molecular profiling of cancers has shown broad utility in delineating pathways and processes underlying disease, in predicting prognosis and response to therapy, and in suggesting novel treatments. To gain further insights from such data, we have integrated and analyzed a comprehensive collection of “molecular concepts”" representing > 2500 cancer-related gene expression signatures from Oncomine and manual curation of the literature, drug treatment signatures from the Connectivity Map, target gene sets from genome-scale regulatory motif analyses, and reference gene sets from several gene and protein annotation databases. We computed pairwise association analysis on all 13,364 molecular concepts and identified > 290,000 significant associations, generating hypotheses that link cancer types and subtypes, pathways, mechanisms, and drugs. To navigate a network of associations, we developed an analysis platform, the Molecular Concepts Map. We demonstrate the utility of the approach by highlighting molecular concepts analyses of Myc pathway activation, breast cancer relapse, and retinoic acid treatment. |
| Databáze: | OpenAIRE |
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