We are currently in the midst a transition to virtual servers, and an update of our security status to comply with the increasingly stringent government requirements. We have successfully maintained and expanded the bulk of our Discover web-based tools, with emphasis on CellMiner and CellMinerCDB. Our CellMiner NCI-60 Analysis Tools section remains 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) Drug vs gene variant/isoforms variant, 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 and largest compound activity data among 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 Pharmacolgy Facility (GPF) manages and integrates molecular and pharmacological data in such a way that enhances understanding, and facilitates the generation of testable hypotheses. The GPF thus both provides access to high throughput data, and provides software resources that facilitate the mining, understanding, and exploitation of that data. As the DTP drug database contains both unexplored compounds and drugs, it remains an unmatched resource both for recognition of potential novel drugs, and improving understanding of pre-existing ones. The NCI-60 is by far the most comprehensively profiled panel of mammalian cells anywhere. CellMiner CDB expands this approach to include addition databases allowing the user to mine and integrate at will. Currently our Discover and CellMiner sites have 9,400 individual users from 110 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 #
1ZICBC011475-07
Application #
10015069
Study Section
Project Start
Project End
Budget Start
Budget End
Support Year
7
Fiscal Year
2019
Total Cost
Indirect Cost
Name
National Cancer Institute Division of 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