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Standards > reporting guideline > bsg-s000652


ready LINCS Extended Metadata Standard: Primary Cells

Abbreviation:LINCS 2: Primary Cells


General Information
LINCS Production Phase 2 Extended Metadata Standards were developed by the LINCS consortium with the goal of generating an integrated view across the diverse LINCS data resources. These guidelines are focused on the minimum required information to model LINCS assays and results and have been recommended by LINCS for adoption beyond the LINCS project. To describe primary cells, they incorporated some of the elements proposed in MIACA. The underlying theme among all cell types is their association with a tissue or organ from which the cells were derived. In many cases, the cells are also associated with a disease.


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This record is maintained by cchung  ORCID

Record added: April 27, 2016, 2:14 p.m.
Record updated: Oct. 22, 2016, 7:50 p.m. by The FAIRsharing Team.


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Connectivity

Implementing Databases (1)
Library of Integrated Network-Based Cellular Signatures Data Portal
The LINCS Data Portal provides a unified interface for searching LINCS dataset packages and reagents. LINCS data are being made openly available as a community resource through a series of data releases, so as to enable scientists to address a broad range of basic research questions and to facilitate the identification of biological targets for new disease therapies. LINCS datasets consist of assay results from cultured and primary human cells treated with bioactive small molecules, ligands such as growth factors and cytokines, or genetic perturbations. Many different assays are used to monitor cell responses, including assays measuring transcript and protein expression; cell phenotype data are captured by biochemical and imaging readouts. Assays are typically carried out on multiple cell types, and at multiple timepoints; perturbagen activity is monitored at multiple doses.

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Publications

Metadata Standard and Data Exchange Specifications to Describe, Model, and Integrate Complex and Diverse High-Throughput Screening Data from the Library of Integrated Network-based Cellular Signatures (LINCS).

Vempati UD,Chung C,Mader C,Koleti A,Datar N,Vidovic D,Wrobel D,Erickson S,Muhlich JL,Berriz G,Benes CH,Subramanian A,Pillai A,Shamu CE,Schurer SC
J Biomol Screen 2014

View Paper (PubMed) View Paper (DOI)