Author:
Gross Sean M.,Dane Mark A.,Smith Rebecca L.,Devlin Kaylyn,McLean Ian,Derrick Daniel,Mills Caitlin,Subramanian Kartik,London Alexandra B.,Torre Denis,Erdem Cemal,Lyons Nicholas,Natoli Ted,Pessa Sarah,Lu Xiaodong,Mullahoo James,Li Jonathan,Adam Miriam,Wassie Brook,Liu Moqing,Kilburn David,Liby Tiera A.,Bucher Elmar,Sanchez-Aguila Crystal,Daily Kenneth,Omberg Larsson,Wang Yunguan,Jacobson Connor,Yapp Clarence,Chung Mirra,Vidovic Dusica,Lu Yiling,Schurer Stephan,Lee Albert,Pillai Ajay,Subramanian Aravind,Papanastasiou Malvina,Fraenkel Ernest,Feiler Heidi S.,Mills Gordon B.,Jaffe Jake,Ma’ayan Avi,Birtwistle Marc R.,Sorger Peter K.,Korkola James E.,Gray Joe W.,Heiser Laura M.
Abstract
SUMMARYThe phenotype of a cell and its underlying molecular state is strongly influenced by extracellular signals, including growth factors, hormones, and extracellular matrix. While these signals are normally tightly controlled, their dysregulation leads to phenotypic and molecular states associated with diverse diseases. To develop a detailed understanding of the linkage between molecular and phenotypic changes, we generated a comprehensive dataset that catalogs the transcriptional, proteomic, epigenomic and phenotypic responses of MCF10A mammary epithelial cells after exposure to the ligands EGF, HGF, OSM, IFNG, TGFB and BMP2. Systematic assessment of the molecular and cellular phenotypes induced by these ligands comprise the LINCS Microenvironment (ME) perturbation dataset, which has been curated and made publicly available for community-wide analysis and development of novel computational methods (synapse.org/LINCS_MCF10A). In illustrative analyses, we demonstrate how this dataset can be used to discover functionally related molecular features linked to specific cellular phenotypes.
Publisher
Cold Spring Harbor Laboratory