A Next Generation Connectivity Map: L1000 Platform and the First 1,000,000 Profiles.
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Cites background or methods from "A Next Generation Connectivity Map:..."
...3 million profiles corresponding to 19,811 drugs and small molecules, and 5,075 molecular (gene-specific knockdown and over-expression) perturbations across 3 to 77 cell lines (Subramanian et al. 2017)....
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...TAS > 0.2 is the standard cutoff for sufficient bioactivity adopted by the CMap-L1000 workflow (Subramanian et al. 2017), while TAS > 0.3 and TAS > 0.4 represent more stringent thresholds we use to assess the effect of increasing bioactivity on downstream analysis such as classification and…...
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...Following 24 hours of chemical exposure, the gene expression of the HEPG2 cells was profiled using the L1000 platform, a high-throughput assay that measures the expression of ~1000 landmark genes and computationally infers the expression of non-measured transcripts (Subramanian et al. 2017)....
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...2 is the standard cutoff for sufficient bioactivity adopted by the CMap-L1000 workflow (Subramanian et al. 2017), while TAS > 0....
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...…each of our signatures and each of the perturbation signatures in the CMap, which comprises ~1.3 million profiles corresponding to 19,811 drugs and small molecules, and 5,075 molecular (gene-specific knockdown and over-expression) perturbations across 3 to 77 cell lines (Subramanian et al. 2017)....
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