ReviewCell systems2018
The Library of Integrated Network-Based Cellular Signatures NIH Program: System-Level Cataloging of Human Cells Response to Perturbations.
Abstract readReview
In one paragraph
Review in Cell systems, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 264 papers, 2 of them syntheses that pooled it.
0numbers the graph read from it
0cells of the map it votes in
264citing papers in PubMed, 2 pooled it
–field-weighted citation impact
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
264 citing papers in PubMed, 2 syntheses or guidelines pooled it.
- Pooled it
- Pooled it
- Molecular Transducers of Human Skeletal Muscle Remodeling under Different Loading States.Cell reports · 2020Trial
- SGLT-2 Inhibitors are Associated With a Lower Risk of Multiple Myeloma.European journal of haematology · 2026Article
- Phosphoproteomic dysregulation promotes tumor proliferation in Cushing's disease.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Fasudil induces anti-inflammatory transcriptomic changes and increased proliferation in human trisomy 21 neural progenitor cells.Biology open · 2026Article
- PathMED: an R toolkit for single-sample molecular scoring and machine learning with omics data.Bioinformatics (Oxford, England) · 2026Article
- ChEA-KG and ChEA-KG-TS: a network-based transcription factor enrichment analysis tool with an accompanying time-series workflow.Nucleic acids research · 2026Article
- When Side Effects Become Therapies: A Mechanistic Taxonomy of Adverse Drug Reactions as Translational Signals for Drug Repositioning.Fundamental & clinical pharmacology · 2026Review
- Glycolytic reprogramming in host response toExperimental and therapeutic medicine · 2026Article
- Article
- Oncogenic cell fate decision in breast epithelial cells I: growth factors and mechanisms.Research square · 2026Article
- Opportunities for antenatal medical treatment of genetic conditions: the earlier, the better.Pediatric research · 2026Article
- Foundation models and deep learning for cancer drug response prediction: a framework for data, metrics, and validation.Briefings in bioinformatics · 2026Review
- Combinatorial prediction of therapeutic perturbations using causally inspired neural networks.Nature biomedical engineering · 2026Article
- Single-Cell Computational Frameworks for Quantifying BET Bromodomain Inhibitor Resistance and Screening Re-Sensitizer Drugs in Triple-Negative Breast Cancer.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- A systematic study of parameter sharing strategies in multi-task learning for drug synergy and sensitivity prediction.Journal of computer-aided molecular design · 2026Article
- GCNPath: introspecting drug response prediction with pathway-guided graph convolution networks.Communications biology · 2026Article
- Defining PI3K Signaling as a Key Regulator of Molecular Heterogeneity and Inflammation in Glomerular Lupus Nephritis.Immune network · 2026Article
- Anti-inflammatory and pro-proliferative effects of fasudil in human trisomy 21 neural progenitor cells.bioRxiv : the preprint server for biology · 2026Article
204 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
107 authors.
Alexandra B KeenanBD2K-LINCS DCIC, Mount Sinai Center for Bioinformatics, Department of Pharmacological Sciences, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA.
Sherry L JenkinsBD2K-LINCS DCIC, Mount Sinai Center for Bioinformatics, Department of Pharmacological Sciences, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA.
Kathleen M JagodnikBD2K-LINCS DCIC, Mount Sinai Center for Bioinformatics, Department of Pharmacological Sciences, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA.
Simon KoplevBD2K-LINCS DCIC, Mount Sinai Center for Bioinformatics, Department of Pharmacological Sciences, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA.
Edward HeBD2K-LINCS DCIC, Mount Sinai Center for Bioinformatics, Department of Pharmacological Sciences, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA.
Denis TorreBD2K-LINCS DCIC, Mount Sinai Center for Bioinformatics, Department of Pharmacological Sciences, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA.
Zichen WangBD2K-LINCS DCIC, Mount Sinai Center for Bioinformatics, Department of Pharmacological Sciences, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA.
Anders B DohlmanBD2K-LINCS DCIC, Mount Sinai Center for Bioinformatics, Department of Pharmacological Sciences, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA.
Moshe C SilversteinBD2K-LINCS DCIC, Mount Sinai Center for Bioinformatics, Department of Pharmacological Sciences, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA.
Alexander LachmannBD2K-LINCS DCIC, Mount Sinai Center for Bioinformatics, Department of Pharmacological Sciences, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA.
Maxim V KuleshovBD2K-LINCS DCIC, Mount Sinai Center for Bioinformatics, Department of Pharmacological Sciences, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA.
Avi Ma'ayanBD2K-LINCS DCIC, Mount Sinai Center for Bioinformatics, Department of Pharmacological Sciences, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA. Electronic address: avi.maayan@mssm.edu.
Vasileios StathiasBD2K-LINCS DCIC, Department of Molecular and Cellular Pharmacology, University of Miami, Miami, FL 33146, USA.
Raymond TerrynBD2K-LINCS DCIC, Department of Molecular and Cellular Pharmacology, University of Miami, Miami, FL 33146, USA.
Daniel CooperBD2K-LINCS DCIC, Department of Molecular and Cellular Pharmacology, University of Miami, Miami, FL 33146, USA.
Michele ForlinBD2K-LINCS DCIC, Department of Molecular and Cellular Pharmacology, University of Miami, Miami, FL 33146, USA.
Amar KoletiBD2K-LINCS DCIC, Department of Molecular and Cellular Pharmacology, University of Miami, Miami, FL 33146, USA.
Dusica VidovicBD2K-LINCS DCIC, Department of Molecular and Cellular Pharmacology, University of Miami, Miami, FL 33146, USA.
Caty ChungBD2K-LINCS DCIC, Department of Molecular and Cellular Pharmacology, University of Miami, Miami, FL 33146, USA.
Stephan C SchürerBD2K-LINCS DCIC, Department of Molecular and Cellular Pharmacology, University of Miami, Miami, FL 33146, USA.
Jouzas VasiliauskasBD2K-LINCS DCIC, Department of Environmental Health, University of Cincinnati, Cincinnati, OH 45220, USA.
Marcin PilarczykBD2K-LINCS DCIC, Department of Environmental Health, University of Cincinnati, Cincinnati, OH 45220, USA.
Behrouz ShamsaeiBD2K-LINCS DCIC, Department of Environmental Health, University of Cincinnati, Cincinnati, OH 45220, USA.
Mehdi FazelBD2K-LINCS DCIC, Department of Environmental Health, University of Cincinnati, Cincinnati, OH 45220, USA.
Yan RenBD2K-LINCS DCIC, Department of Environmental Health, University of Cincinnati, Cincinnati, OH 45220, USA.
Wen NiuBD2K-LINCS DCIC, Department of Environmental Health, University of Cincinnati, Cincinnati, OH 45220, USA.
Nicholas A ClarkBD2K-LINCS DCIC, Department of Environmental Health, University of Cincinnati, Cincinnati, OH 45220, USA.
Shana WhiteBD2K-LINCS DCIC, Department of Environmental Health, University of Cincinnati, Cincinnati, OH 45220, USA.
Naim MahiBD2K-LINCS DCIC, Department of Environmental Health, University of Cincinnati, Cincinnati, OH 45220, USA.
Lixia ZhangBD2K-LINCS DCIC, Department of Environmental Health, University of Cincinnati, Cincinnati, OH 45220, USA.
Michal KourilBD2K-LINCS DCIC, Department of Environmental Health, University of Cincinnati, Cincinnati, OH 45220, USA.
John F ReichardBD2K-LINCS DCIC, Department of Environmental Health, University of Cincinnati, Cincinnati, OH 45220, USA.
Siva SivaganesanBD2K-LINCS DCIC, Department of Environmental Health, University of Cincinnati, Cincinnati, OH 45220, USA.
Mario MedvedovicBD2K-LINCS DCIC, Department of Environmental Health, University of Cincinnati, Cincinnati, OH 45220, USA.
Jaroslaw MellerBD2K-LINCS DCIC, Department of Environmental Health, University of Cincinnati, Cincinnati, OH 45220, USA.
Rick J KochDToxS, Department of Pharmacological Sciences, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA.
Marc R BirtwistleDToxS, Department of Pharmacological Sciences, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA.
Ravi IyengarDToxS, Department of Pharmacological Sciences, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA.
Eric A SobieDToxS, Department of Pharmacological Sciences, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA.
Evren U AzelogluDToxS, Department of Pharmacological Sciences, Icahn School of Medicine at Mount Sinai, New York, NY 10029, USA.
Julia KayeNeuroLINCS, Gladstone Institute of Neurological Disease and the Departments of Neurology and Physiology, University of California San Francisco, San Francisco, CA 94158, USA.
Jeannette OsterlohNeuroLINCS, Gladstone Institute of Neurological Disease and the Departments of Neurology and Physiology, University of California San Francisco, San Francisco, CA 94158, USA.
Kelly HastonNeuroLINCS, Gladstone Institute of Neurological Disease and the Departments of Neurology and Physiology, University of California San Francisco, San Francisco, CA 94158, USA.
Jaslin KalraNeuroLINCS, Gladstone Institute of Neurological Disease and the Departments of Neurology and Physiology, University of California San Francisco, San Francisco, CA 94158, USA.
Steve FinkbienerNeuroLINCS, Gladstone Institute of Neurological Disease and the Departments of Neurology and Physiology, University of California San Francisco, San Francisco, CA 94158, USA.
Jonathan LiNeuroLINCS, Department of Biological Engineering, MIT, Cambridge, MA 02142, USA.
Pamela MilaniNeuroLINCS, Department of Biological Engineering, MIT, Cambridge, MA 02142, USA.
Miriam AdamNeuroLINCS, Department of Biological Engineering, MIT, Cambridge, MA 02142, USA.
Renan Escalante-ChongNeuroLINCS, Department of Biological Engineering, MIT, Cambridge, MA 02142, USA.
Karen SachsNeuroLINCS, Department of Biological Engineering, MIT, Cambridge, MA 02142, USA.
Alex LenailNeuroLINCS, Department of Biological Engineering, MIT, Cambridge, MA 02142, USA.
Divya RamamoorthyNeuroLINCS, Department of Biological Engineering, MIT, Cambridge, MA 02142, USA.
Ernest FraenkelNeuroLINCS, Department of Biological Engineering, MIT, Cambridge, MA 02142, USA.
Gavin DaigleNeuroLINCS, Department of Neuroscience, Johns Hopkins University, Baltimore, MD 21205, USA.
Uzma HussainNeuroLINCS, Department of Neuroscience, Johns Hopkins University, Baltimore, MD 21205, USA.
Alyssa CoyeNeuroLINCS, Department of Neuroscience, Johns Hopkins University, Baltimore, MD 21205, USA.
Jeffrey RothsteinNeuroLINCS, Department of Neuroscience, Johns Hopkins University, Baltimore, MD 21205, USA.
Dhruv SareenNeuroLINCS, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
Loren OrnelasNeuroLINCS, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
Maria BanuelosNeuroLINCS, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
Berhan MandefroNeuroLINCS, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
Ritchie HoNeuroLINCS, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
Clive N SvendsenNeuroLINCS, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
Ryan G LimNeuroLINCS, Departments of Psychiatry and Human Behavior and Neurobiology and Behavior, University of California Irvine, Irvine, CA 92697, USA.
Jennifer StocksdaleNeuroLINCS, Departments of Psychiatry and Human Behavior and Neurobiology and Behavior, University of California Irvine, Irvine, CA 92697, USA.
Malcolm S CasaleNeuroLINCS, Departments of Psychiatry and Human Behavior and Neurobiology and Behavior, University of California Irvine, Irvine, CA 92697, USA.
Terri G ThompsonNeuroLINCS, Departments of Psychiatry and Human Behavior and Neurobiology and Behavior, University of California Irvine, Irvine, CA 92697, USA.
Jie WuNeuroLINCS, Departments of Psychiatry and Human Behavior and Neurobiology and Behavior, University of California Irvine, Irvine, CA 92697, USA.
Leslie M ThompsonNeuroLINCS, Departments of Psychiatry and Human Behavior and Neurobiology and Behavior, University of California Irvine, Irvine, CA 92697, USA.
Victoria DardovNeuroLINCS, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
Vidya VenkatramanNeuroLINCS, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
Andrea MatlockNeuroLINCS, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
Jennifer E Van EykNeuroLINCS, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
Jacob D JaffeLINCS PCCSE, The Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA.
Malvina PapanastasiouLINCS PCCSE, The Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA.
Aravind SubramanianLINCS Center for Transcriptomics, The Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA.
Todd R GolubLINCS Center for Transcriptomics, The Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA; Dana-Farber Cancer Institute, Boston, MA 02215, USA; Howard Hughes Medical Institute, Chevy Chase, MD 20815, USA; Harvard Medical School, Boston, MA 02115, USA.
Sean D EricksonHMS LINCS Center, Harvard Medical School, Boston, MA 02115, USA.
Mohammad Fallahi-SichaniHMS LINCS Center, Harvard Medical School, Boston, MA 02115, USA.
Marc HafnerHMS LINCS Center, Harvard Medical School, Boston, MA 02115, USA.
Nathanael S GrayHMS LINCS Center, Harvard Medical School, Boston, MA 02115, USA.
Jia-Ren LinHMS LINCS Center, Harvard Medical School, Boston, MA 02115, USA.
Caitlin E MillsHMS LINCS Center, Harvard Medical School, Boston, MA 02115, USA.
Jeremy L MuhlichHMS LINCS Center, Harvard Medical School, Boston, MA 02115, USA.
Mario NiepelHMS LINCS Center, Harvard Medical School, Boston, MA 02115, USA.
Caroline E ShamuHMS LINCS Center, Harvard Medical School, Boston, MA 02115, USA.
Elizabeth H WilliamsHMS LINCS Center, Harvard Medical School, Boston, MA 02115, USA.
David WrobelHMS LINCS Center, Harvard Medical School, Boston, MA 02115, USA.
Peter K SorgerHMS LINCS Center, Harvard Medical School, Boston, MA 02115, USA.
Laura M HeiserMEP-LINCS Center, Oregon Health & Science University, Portland, OR 97239, USA.
Joe W GrayMEP-LINCS Center, Oregon Health & Science University, Portland, OR 97239, USA.
James E KorkolaMEP-LINCS Center, Oregon Health & Science University, Portland, OR 97239, USA.
Gordon B MillsMEP-LINCS Center, Department of Systems Biology, The University of Texas MD Anderson Cancer Center, Houston, TX 77030, USA.
Mark LaBargeMEP-LINCS Center, Department of Population Sciences, Beckman Research Institute at City of Hope, Duarte, CA 91011, USA; MEP-LINCS Center, Center for Cancer Biomarkers Research, University of Bergen, Bergen 5009, Norway.
Heidi S FeilerMEP-LINCS Center, Oregon Health & Science University, Portland, OR 97239, USA.
Mark A DaneMEP-LINCS Center, Oregon Health & Science University, Portland, OR 97239, USA.
Elmar BucherMEP-LINCS Center, Oregon Health & Science University, Portland, OR 97239, USA.
Michel NederlofMEP-LINCS Center, Oregon Health & Science University, Portland, OR 97239, USA; MEP-LINCS Center, Quantitative Imaging Systems LLC, Portland, OR 97239, USA.
Damir SudarMEP-LINCS Center, Oregon Health & Science University, Portland, OR 97239, USA; MEP-LINCS Center, Quantitative Imaging Systems LLC, Portland, OR 97239, USA.
Sean GrossMEP-LINCS Center, Oregon Health & Science University, Portland, OR 97239, USA.
David F KilburnMEP-LINCS Center, Oregon Health & Science University, Portland, OR 97239, USA.
Rebecca SmithMEP-LINCS Center, Oregon Health & Science University, Portland, OR 97239, USA.
Kaylyn DevlinMEP-LINCS Center, Oregon Health & Science University, Portland, OR 97239, USA.
Ron MargolisNIH, Bethesda, MD 20892, USA.
Leslie DerrNIH, Bethesda, MD 20892, USA.
Albert LeeNIH, Bethesda, MD 20892, USA.
Ajay PillaiNIH, Bethesda, MD 20892, USA.
Funding
Data Coordination and Integration Center for LINCS-BD2KU54HL127624 · NHLBI · ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI · PI MA'AYAN, AVI, SCHURER, STEPHAN C · 2014 to 2019
$23.5MDiscovering existing medicines that abrogate cellular responses to SARS CoV-2 infectionU54HL127366 · NHLBI · BROAD INSTITUTE, INC. · PI GOLUB, TODD R. · 2014 to 2020
$14.3MPharmaco Response Signatures and Disease MechanismU54HL127365 · NHLBI · HARVARD MEDICAL SCHOOL · PI SORGER, PETER KARL · 2014 to 2019
$13.1MDrug Combination Signatures for Prediction and Mitigation of ToxicityU54HG008098 · NHGRI · ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI · PI BIRTWISTLE, MARC R., SOBIE, ERIC A · 2014 to 2019
$11.8MNeuron and Glial Cellular Signatures from Normal and Diseased iPS Cells-SupplementU54NS091046 · NINDS · UNIVERSITY OF CALIFORNIA-IRVINE · PI FINKBEINER, STEVEN M, FRAENKEL, ERNEST · 2014 to 2020
$11.7MOutreachU54HG008100 · NHGRI · OREGON HEALTH & SCIENCE UNIVERSITY · PI GRAY, JOE W., HEISER, LAURA MADELINE · 2014 to 2019
$10.5MThere and Back Again: Epigenetic Reinforcement of Cellular Signaling States - OverallU54HG008097 · NHGRI · BROAD INSTITUTE, INC. · PI JAFFE, JACOB DAVID · 2014 to 2019
$9.3MTRAINING PROGRAM IN MOLECULAR AND CELLULAR CARDIOLOGYT32HL007824 · NHLBI · MOUNT SINAI SCHOOL OF MEDICINE OF NYU · PI GELB, BRUCE D · 1995 to 2022
$8.6MGraduate Training in Computational and Systems BiologyT32GM087237 · NIGMS · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI BURGE, CHRISTOPHER B · 2009 to 2023
$4.6MTransforming Genomics with 5 PB Big Omics Data Engine Cray CS300-AC SupercomputerS10OD018522 · OD · ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI · PI KOVATCH, PATRICIA · 2014 to 2014
$1.9MDevelopment and Implementation Plan for Community Supported FAIR Guidelines and MetricsOT3OD025467 · OD · ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI · PI MA'AYAN, AVI · 2017 to 2018
$1.2MComparative genomic approaches to improve iPSC-derived motor neuron models of ALSK99AG056678 · NIA · CEDARS-SINAI MEDICAL CENTER · PI HO, RITCHIE · 2017 to 2018
$190kNHGRI NIH HHS U54 HG008097NHGRI NIH HHS U54 HG008098NHGRI NIH HHS U54 HG008100NHLBI NIH HHS T32 HL007824NHLBI NIH HHS U54 HL127365NHLBI NIH HHS U54 HL127366NHLBI NIH HHS U54 HL127624NIA NIH HHS K99 AG056678NIGMS NIH HHS T32 GM087237NIH HHS OT3 OD025467NIH HHS S10 OD018522NINDS NIH HHS U54 NS091046
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.
Indexed as
CatalogingComputational BiologyDatabases, ChemicalGene Expression ProfilingGene LibraryHumansInformation Storage and RetrievalNational Health ProgramsNational Institutes of Health (U.S.)Systems BiologyTranscriptomeUnited StatesBD2Kdata integrationL1000lincsprogramlincsprojectMCF10AMEMAP100systems biologysystems pharmacology
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.