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The National Cancer Institute s Genomic Data Commons (GDC), launched in 2016 by then-Vice President Joseph Biden and hosted at the University of Chicago, has become one of the largest and most widely used resources in cancer genomics, with more than 3.3 petabytes of data from more than 65 projects and over 84,000 anonymized patient cases, serving more than 50,000 unique users each month.
In new papers published Feb. 22 in
Nature Genetics, the UChicago-based research team shares new details about the GDC, which is funded by the National Cancer Institute (NCI), via subcontract with the Frederick National Laboratory for Cancer Research, currently operated by Leidos Biomedical Research, Inc. One of the papers describes the design and operation of the GDC. The other describes the pipelines used by the GDC for the harmonization of data submitted to the GDC and the generation of datasets used by the GDC research community.
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Cancer, the Emperor of All Maladies as it has been termed, has been studied for millennia. President Nixon s War on Cancer resulted in slow but steady progress, aided by the biotechnology revolution, the development of monoclonal antibodies (
see Herceptin®) and more recent developments in immunological interventions like CAR-T cells (
But the basis for many characteristics of cancer biology remain elusive, including what is classically termed the Warburg effect,
i.e., the tendency of cancer cells to be dependent upon aerobic glycolysis instead of oxidative phosphorylation even in the presence of oxygen and thus not being an adaptation for low oxygen conditions as it is in normal cells. (Those with long memories will remember the saga of the eminent Efraim Racker being fooled by a graduate student who presented falsified evidence of a protein kinase cascade that regulated glycolysis.) This effect has been kn