The Library of Integrated Network-Based Cellular Signatures NIH Program: System-Level Cataloging of Human Cells Response to Perturbations.

Cell Syst

Authors	Alexandra Keenan Sherry Jenkins Kathleen Jagodnik Simon Koplev Edward He Denis Torre Zichen Wang Anders Dohlman Moshe Silverstein Alexander Lachmann Maxim Kuleshov Avi Ma'ayan Vasileios Stathias Raymond Terryn Daniel Cooper Michele Forlin Amar Koleti Dusica Vidovic Caty Chung Stephan Schürer Jouzas Vasiliauskas Marcin Pilarczyk Behrouz Shamsaei Mehdi Fazel Yan Ren Wen Niu Nicholas Clark Shana White Naim Mahi Lixia Zhang Michal Kouril John Reichard Siva Sivaganesan Mario Medvedovic Jaroslaw Meller Rick Koch Marc Birtwistle Ravi Iyengar Eric Sobie Evren Azeloglu Julia Kaye Jeannette Osterloh Kelly Haston Jaslin Kalra Steve Finkbiener Jonathan Li Pamela Milani Miriam Adam Renan Escalante-Chong Karen Sachs Alex Lenail Divya Ramamoorthy Ernest Fraenkel Gavin Daigle Uzma Hussain Alyssa Coye Jeffrey Rothstein Dhruv Sareen Loren Ornelas Maria Banuelos Berhan Mandefro Ritchie Ho Clive Svendsen Ryan Lim Jennifer Stocksdale Malcolm Casale Terri Thompson Jie Wu Leslie Thompson Victoria Dardov Vidya Venkatraman Andrea Matlock Jennifer Van Eyk Jacob Jaffe Malvina Papanastasiou Aravind Subramanian Todd Golub Sean Erickson Mohammad Fallahi-Sichani Marc Hafner Nathanael Gray Jia-Ren Lin Caitlin Mills Jeremy Muhlich Mario Niepel Caroline Shamu Elizabeth Williams David Wrobel Peter Sorger Laura Heiser Joe Gray James Korkola Gordon Mills Mark LaBarge Heidi Feiler Mark Dane Elmar Bucher Michel Nederlof Damir Sudar Sean Gross David Kilburn Rebecca Smith Kaylyn Devlin Ron Margolis Leslie Derr Albert Lee Ajay Pillai
Keywords	Humans Gene Expression Profiling Computational Biology Information Storage and Retrieval Transcriptome United States Gene Library National Institutes of Health (U.S.) Systems Biology Databases, Chemical Cataloging National Health Programs
Abstract	The Library of Integrated Network-Based Cellular Signatures (LINCS) is an NIH Common Fund program that catalogs how human cells globally respond to chemical, genetic, and disease perturbations. Resources generated by LINCS include experimental and computational methods, visualization tools, molecular and imaging data, and signatures. By assembling an integrated picture of the range of responses of human cells exposed to many perturbations, the LINCS program aims to better understand human disease and to advance the development of new therapies. Perturbations under study include drugs, genetic perturbations, tissue micro-environments, antibodies, and disease-causing mutations. Responses to perturbations are measured by transcript profiling, mass spectrometry, cell imaging, and biochemical methods, among other assays. The LINCS program focuses on cellular physiology shared among tissues and cell types relevant to an array of diseases, including cancer, heart disease, and neurodegenerative disorders. This Perspective describes LINCS technologies, datasets, tools, and approaches to data accessibility and reusability.
Year of Publication	2018
Journal	Cell Syst
Volume	6
Issue	1
Pages	13-24
Date Published	2018 01 24
ISSN	2405-4712
DOI	10.1016/j.cels.2017.11.001
PubMed ID	29199020
PubMed Central ID	PMC5799026
Links
Grant list	K99 AG056678 / AG / NIA NIH HHS / United States U54 HL127624 / HL / NHLBI NIH HHS / United States OT3 OD025467 / OD / NIH HHS / United States U54 HG008100 / HG / NHGRI NIH HHS / United States S10 OD018522 / OD / NIH HHS / United States T32 GM087237 / GM / NIGMS NIH HHS / United States T32 HL007824 / HL / NHLBI NIH HHS / United States U54 HG008097 / HG / NHGRI NIH HHS / United States U54 HL127366 / HL / NHLBI NIH HHS / United States U54 HG008098 / HG / NHGRI NIH HHS / United States U54 HL127365 / HL / NHLBI NIH HHS / United States U54 NS091046 / NS / NINDS NIH HHS / United States