The LINCS Consortium
By generating and making public data that indicates how cells respond to various genetic and environmental stressors, the LINCS project will help us gain a more detailed understanding of cell pathways and aid efforts to develop therapies that might restore perturbed pathways and networks to their normal states. The LINCS website is a source of information for the research community and general public about the LINCS project. This website along with the LINCS Data Portal contains details about the assays, cell types, and perturbagens that are currently part of the library, as well as links to participating sites, data releases from the sites, and software that can be used for analyzing the data.
LINCS data can be accessed from the following resources:
Featured Tools and Datasets
LINCS MCF10A
Molecular Deep Dive (MDD)
To develop a detailed understanding of the linkage between molecular and phenotypic changes, LINCS consortium 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 the development of novel hypotheses and computational methods. The MCF10A project was presented in a Communications Biology publication.
LINCS L1000 Signature Search (L2S2)
The LINCS L1000 Signature Search L2S2 is a super-fast search engine that enables searching across over 1.678 million LINCS L1000 chemical perturbations and CRISPR KO signatures. L2S2 includes filters for FDA-approved drugs and signature directionality. With the L2S2 search engine, users can identify small molecules and single gene CRISPR KOs that produce gene expression profiles similar or opposite to their submitted gene sets. L2S2 also includes a consensus search feature that ranks perturbations across cellular contexts, time points, and concentrations. L2S2 was developed by the LINCS DCIC using data collected by the LINCS Transcriptomics Center at the Broad Institute.
SigCom LINCS
Searching Over One Million Signatures
SigCom LINCS is a web-based search engine that serves over 1.5 million gene expression signatures processed, analyzed, and visualized from LINCS, GTEx, and GEO developed by BD2K-LINCS DCIC. SigCom LINCS is built from the Signature Commons framework, a cloud-agnostic generic platform that can be used to stand up Data Commons with a focus on searchable signatures. SigCom LINCS provides rapid signature similarity search for mimickers and reversers given sets of up and down genes. Additionally, users of SigCom LINCS can perform a metadata search to find and analyze subsets of signatures and find information about genes and drugs. The SigCom LINCS has been introduced as a publication in the journal Nucleic Acids Research.
LINCS MCF10A
Molecular Deep Dive (MDD)
To develop a detailed understanding of the linkage between molecular and phenotypic changes, LINCS consortium 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 the development of novel hypotheses and computational methods. The MCF10A project was presented in a Communications Biology publication.
LINCS L1000 Signature Search (L2S2)
The LINCS L1000 Signature Search L2S2 is a super-fast search engine that enables searching across over 1.678 million LINCS L1000 chemical perturbations and CRISPR KO signatures. L2S2 includes filters for FDA-approved drugs and signature directionality. With the L2S2 search engine, users can identify small molecules and single gene CRISPR KOs that produce gene expression profiles similar or opposite to their submitted gene sets. L2S2 also includes a consensus search feature that ranks perturbations across cellular contexts, time points, and concentrations. L2S2 was developed by the LINCS DCIC using data collected by the LINCS Transcriptomics Center at the Broad Institute.