We have successfully maintained and expanded our Discover web-based tools, with emphasis on CellMiner. Our CellMiner NCI-60 Analysis Tools section is providing a significant resource for pharmacogenomic integration, research, and discovery. It is currently the host for four tools, i) Cell line signature, ii) Cross-correlation, iii) Pattern comparison, and iv) genetic variant versus drug visualization, all of which are designed to reduce the time required by the scientist to integrate molecular and pharmacological data. We continue to upgrade both the software and databases in this section. We currently provide the most inclusive set of molecular data, as well as a more extensive set of compound activities than any of the large-scale cellular databases. The CellMiner data and tools are creating major opportunities for progress in rational drug discovery, application, and individualization of therapy for cancer patients. As molecular alterations of many types can contribute to the outcome of therapy, the Genomic and Bioinformatics Group (GBG) manages and integrates molecular and pharmacological data in such a way that enhances understanding, and facilitates the generation of testable hypotheses in the context of pharmacology. The GBG thus provides access to high throughput data, in addition to providing software resources that facilitate the understanding, mining and exploitation of these data. The drug database is continuously expanded by the DTP, including new drugs entering clinical trials. The NCI-60 is by far the most comprehensively profiled panel of mammalian cells anywhere. Currently our Discover and CellMiner sites have 5,800 individual users from 120 countries per month. It has in the past and currently continues to lead to translational discoveries.

Agency
National Institute of Health (NIH)
Institute
National Cancer Institute (NCI)
Type
Scientific Cores Intramural Research (ZIC)
Project #
1ZICBC011475-05
Application #
9556844
Study Section
Project Start
Project End
Budget Start
Budget End
Support Year
5
Fiscal Year
2017
Total Cost
Indirect Cost
Name
Basic Sciences
Department
Type
DUNS #
City
State
Country
Zip Code
Luna, Augustin; Rajapakse, Vinodh N; Sousa, Fabricio G et al. (2016) rcellminer: exploring molecular profiles and drug response of the NCI-60 cell lines in R. Bioinformatics 32:1272-4
Reinhold, William C; Sunshine, Margot; Varma, Sudhir et al. (2015) Using CellMiner 1.6 for Systems Pharmacology and Genomic Analysis of the NCI-60. Clin Cancer Res 21:3841-52
Reinhold, William C; Varma, Sudhir; Rajapakse, Vinodh N et al. (2015) Using drug response data to identify molecular effectors, and molecular ""omic"" data to identify candidate drugs in cancer. Hum Genet 134:3-11
Varma, Sudhir; Pommier, Yves; Sunshine, Margot et al. (2014) High resolution copy number variation data in the NCI-60 cancer cell lines from whole genome microarrays accessible through CellMiner. PLoS One 9:e92047
Reinhold, William C; Varma, Sudhir; Sousa, Fabricio et al. (2014) NCI-60 whole exome sequencing and pharmacological CellMiner analyses. PLoS One 9:e101670
Abaan, Ogan D; Polley, Eric C; Davis, Sean R et al. (2013) The exomes of the NCI-60 panel: a genomic resource for cancer biology and systems pharmacology. Cancer Res 73:4372-82
Reinhold, William C; Sunshine, Margot; Liu, Hongfang et al. (2012) CellMiner: a web-based suite of genomic and pharmacologic tools to explore transcript and drug patterns in the NCI-60 cell line set. Cancer Res 72:3499-511