In total, we generated 1,319,138 L1000 profiles from 42,080 perturbagens (19,811 small molecule compounds, 18,493 shRNAs, 3,462 cDNAs, and 314 biologics), corresponding to 25,200 biological entities (19,811 compounds, shRNA and/or cDNA against 5,075 genes, and 314 biologics) for a total of 473,647 signatures (consolidating replicates), representing over a 1,000-fold increase over the CMap pilot dataset. We term this first release of an L1000-based compendium CMap-L1000v1 (Figure 2A). All data, at multiple levels of pre-processing are available via GEO (accession GSE92742 and pre-processing code via GitHub), and for easier use via the CLUE analysis environment (https://clue.io; see below and Figure 2B).
