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Integrative genomic analyses identify MITF as a lineage survival oncogene amplified in malignant melanoma

Publication: Journal Article

Garraway, Levi, Hans Widlund, Mark Rubin, Gad Getz, Aaron Berger, Sridhar Ramaswamy, Rameen Beroukhim, et al. 2005. “Integrative Genomic Analyses Identify MITF As a Lineage Survival Oncogene Amplified in Malignant Melanoma”. Nature 436 (7047): 117-22.

The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity

Publication: Journal Article

Barretina, Jordi, Giordano Caponigro, Nicolas Stransky, Kavitha Venkatesan, Adam Margolin, Sungjoon Kim, Christopher Wilson, et al. 2012. “The Cancer Cell Line Encyclopedia Enables Predictive Modelling of Anticancer Drug Sensitivity”. Nature 483 (7391): 603-7.

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Processed Data CCLE data Broad DepMap Portal : The most recently processed and up-to-date CCLE datasets along with many perturbation datasets. List of Cell lines Cell line annotations Genetic Data Merged mutation calls (Coding regions, germlin filtered) CCLE structural variants (SvABA calls) for 329...

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Note: CellProfiler versions 2.2 and 3.0 require installation of a Java 8 JDK CellProfiler 4 4.2.7 macOS (10.15+) Windows (64-bit) 4.2.6 macOS (10.15+) Windows (64-bit) 4.2.5 macOS (10.15+) Windows (64-bit) 4.2.4 macOS (10.15+) Windows (64-bit) 4.2.1 macOS (10.14+) Windows (64-bit) 4.1.3 macOS (10.14...

Pharmacogenomic agreement between two cancer cell line data sets

Publication: Journal Article

Cancer Cell Line Encyclopedia Consortium, and Genomics of Drug Sensitivity in Cancer Consortium. 2015. “Pharmacogenomic Agreement Between Two Cancer Cell Line Data Sets”. Nature 528 (7580): 84-7.

Quantitative Proteomics of the Cancer Cell Line Encyclopedia

Publication: Journal Article

Nusinow, David, John Szpyt, Mahmoud Ghandi, Christopher Rose, Robert McDonald, Marian Kalocsay, Judit Jané-Valbuena, et al. 2020. “Quantitative Proteomics of the Cancer Cell Line Encyclopedia”. Cell 180 (2): 387-402.e16.

Domain to Data: Carpenter shares her journey from biologist towards computer science

News: July 10, 2020

Today, Cell Press journal Patterns published a feature by COBA's own Dr. Anne Carpenter in their "People of Data" series discussing her transition from being a biologist to leading an entirely computational group. In the piece, Carpenter offers great insight for those who may be considering a...

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