ArticleFrontiers in immunology2023
Drug-target identification in COVID-19 disease mechanisms using computational systems biology approaches.
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Article in Frontiers in immunology, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers, 1 of them a synthesis that pooled it.
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14citing papers in PubMed, 1 pooled it
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Who cites it
14 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Molecular exploration of host-pathogen interactions in severeFrontiers in medicine · 2025Pooled it
- Digital twins to accelerate target identification and drug development for immune-mediated disorders.FEBS open bio · 2026Review
- momapy: a Python library to work with molecular maps.Bioinformatics (Oxford, England) · 2026Article
- Time-Resolved Transcriptomic Profiling of Chandipura Virus Infection Reveals Dynamic Host Responses and Host-Directed Therapeutic Targets.International journal of molecular sciences · 2026Article
- HIDmap: a physiology-based map of human immune system development to support animal-free research and regulatory innovation.Frontiers in immunology · 2026Article
- Path-based quantification of activation and repression in Boolean models using BooLEVARD.NPJ systems biology and applications · 2025Article
- FAIR assessment of Disease Maps fosters open science and scientific crowdsourcing in systems biomedicine.Scientific data · 2025Article
- Advancing curation of viral life cycles, host interactions, and therapeutics in Reactome.Journal of virology · 2025Review
- Cellular mechanical memory: a potential tool for mesenchymal stem cell-based therapy.Stem cell research & therapy · 2025Review
- Deciphering shared molecular dysregulation across Parkinson's disease variants using a multi-modal network-based data integration and analysis.NPJ Parkinson's disease · 2025Article
- Sustainable software development in science - insights from 20 years of Vanted.Journal of integrative bioinformatics · 2025Article
- In-silico study of approved drugs as potential inhibitors against 3CLpro and other viral proteins of CoVID-19.PloS one · 2025Article
- Unlocking liver physiology: comprehensive pathway maps for mechanistic understanding.Frontiers in toxicology · 2025Article
- Immune digital twins for complex human pathologies: applications, limitations, and challenges.NPJ systems biology and applications · 2024Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
78 authors.
Anna NiarakisUniversité Paris-Saclay, Laboratoire Européen de Recherche pour la Polyarthrite rhumatoïde - Genhotel, Univ Evry, Evry, France.
Marek OstaszewskiLuxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg.
Alexander MazeinLuxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg.
Inna KupersteinInstitut Curie, P.S.L. Research University, Paris, France.
Martina KutmonMaastricht Centre for Systems Biology (MaCSBio), Maastricht University, Maastricht, Netherlands.
Marc E GillespieOntario Institute for Cancer Research, Toronto, ON, Canada.
Akira FunahashiDepartment of Biosciences and Informatics, Keio University, Kanagawa, Japan.
Marcio Luis AcencioLuxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg.
Ahmed HemedanLuxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg.
Michael AichemDepartment of Computer and Information Science, University of Konstanz, Konstanz, Germany.
Karsten KleinDepartment of Computer and Information Science, University of Konstanz, Konstanz, Germany.
Tobias CzaudernaFaculty of Applied Computer Sciences & Biosciences, University of Applied Sciences Mittweida, Mittweida, Germany.
Felicia BurtscherLuxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg.
Takahiro G YamadaDepartment of Biosciences and Informatics, Keio University, Kanagawa, Japan.
Yusuke HikiCenter for Biosciences and Informatics, Graduate School of Fundamental Science and Technology, Keio University, Kanagawa, Japan.
Noriko F HiroiFaculty of Creative Engineering, Kanagawa Institute of Technology, Kanagawa, Japan.
Finterly HuMaastricht Centre for Systems Biology (MaCSBio), Maastricht University, Maastricht, Netherlands.
Nhung PhamMaastricht Centre for Systems Biology (MaCSBio), Maastricht University, Maastricht, Netherlands.
Friederike EhrhartDepartment of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, Maastricht, Netherlands.
Egon L WillighagenDepartment of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, Maastricht, Netherlands.
Alberto ValdeolivasInstitute for Computational Biomedicine, Heidelberg University, Faculty of Medicine, Heidelberg University Hospital, Bioquant, Heidelberg, Germany.
Aurelien DugourdInstitute for Computational Biomedicine, Heidelberg University, Faculty of Medicine, Heidelberg University Hospital, Bioquant, Heidelberg, Germany.
Francesco MessinaDepartment of Epidemiology, Preclinical Research and Advanced Diagnostic, National Institute for Infectious Diseases' Lazzaro Spallanzani' - IRCCS, Rome, Italy.
Marina Esteban-MedinaComputational Medicine Platform, Andalusian Public Foundation Progress and Health-FPS, Sevilla, Spain.
Maria Peña-ChiletComputational Medicine Platform, Andalusian Public Foundation Progress and Health-FPS, Sevilla, Spain.
Kinza RianComputational Medicine Platform, Andalusian Public Foundation Progress and Health-FPS, Sevilla, Spain.
Sylvain SolimanLifeware Group, Inria, Saclay-île de France, Palaiseau, France.
Sara Sadat AghamiriDepartment of Biochemistry, University of Nebraska-Lincoln, Lincoln, NE, United States.
Bhanwar Lal PuniyaDepartment of Biochemistry, University of Nebraska-Lincoln, Lincoln, NE, United States.
Aurélien NaldiLifeware Group, Inria, Saclay-île de France, Palaiseau, France.
Tomáš HelikarDepartment of Biochemistry, University of Nebraska-Lincoln, Lincoln, NE, United States.
Vidisha SinghUniversité Paris-Saclay, Laboratoire Européen de Recherche pour la Polyarthrite rhumatoïde - Genhotel, Univ Evry, Evry, France.
Marco Fariñas FernándezDepartment of Biology, Norwegian University of Science and Technology, Trondheim, Norway.
Viviam BermudezDepartment of Biology, Norwegian University of Science and Technology, Trondheim, Norway.
Eirini TsirvouliDepartment of Biology, Norwegian University of Science and Technology, Trondheim, Norway.
Arnau MontagudBarcelona Supercomputing Center (BSC.), Barcelona, Spain.
Vincent NoëlInstitut Curie, P.S.L. Research University, Paris, France.
Miguel Ponce-de-LeonBarcelona Supercomputing Center (BSC.), Barcelona, Spain.
Dieter MaierLabvantage-Biomax GmbH, Planegg, Germany.
Angela BauchLabvantage-Biomax GmbH, Planegg, Germany.
Benjamin M GyoriHarvard Medical School, Laboratory of Systems Pharmacology, Boston, MA, United States.
John A BachmanHarvard Medical School, Laboratory of Systems Pharmacology, Boston, MA, United States.
Augustin LunaComputational Biology Branch, National Library of Medicine, Bethesda, MD, United States.
Janet PiñeroMedbioinformatics Solutions SL, Barcelona, Spain.
Laura I FurlongMedbioinformatics Solutions SL, Barcelona, Spain.
Irina BalaurLuxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg.
Adrien RougnyBiotechnology Research Institute for Drug Discovery, National Institute of Advanced Industrial Science and Technology (AIST), Aomi, Tokyo, Japan.
Yohan JaroszLuxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg.
Rupert W OverallInstitute for Biology, Humboldt University of Berlin, Berlin, Germany.
Robert PhairIntegrative Bioinformatics, Inc., Mountain View, CA, United States.
Livia PerfettoDepartment of Biology and Biotechnology Charles Darwin, Sapienza University of Rome, Rome, Italy.
Lisa MatthewsDepartment of Biochemistry & Molecular Pharmacology, NYU. Langone Medical Center, New York, NY, United States.
Devasahayam Arokia Balaya RexCentre for Integrative Omics Data Science, Yenepoya (Deemed to be University), Derlakatte, Mangalore, India.
Marija Orlic-MilacicOntario Institute for Cancer Research, Toronto, ON, Canada.
Luis Cristobal Monraz GomezInstitut Curie, P.S.L. Research University, Paris, France.
Bertrand De MeulderAssociation E.I.S.B.M, Brignais, France.
Jean Marie RavelInstitut Curie, P.S.L. Research University, Paris, France.
Bijay JassalOntario Institute for Cancer Research, Toronto, ON, Canada.
Venkata SatagopamLuxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg.
Guanming WuOregon Health Sciences University, Portland, OR, United States.
Martin GolebiewskiHeidelberg Institute for Theoretical Studies (HITS), Heidelberg, Germany.
Piotr GawronLuxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg.
Laurence CalzoneInstitut Curie, P.S.L. Research University, Paris, France.
Jacques S BeckmannUniversity of Lausanne, Lausanne, Switzerland.
Chris T EveloDepartment of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, Maastricht, Netherlands.
Peter D'EustachioDepartment of Biochemistry & Molecular Pharmacology, NYU. Langone Medical Center, New York, NY, United States.
Falk SchreiberDepartment of Computer and Information Science, University of Konstanz, Konstanz, Germany.
Julio Saez-RodriguezInstitute for Computational Biomedicine, Heidelberg University, Faculty of Medicine, Heidelberg University Hospital, Bioquant, Heidelberg, Germany.
Joaquin DopazoComputational Medicine Platform, Andalusian Public Foundation Progress and Health-FPS, Sevilla, Spain.
Martin KuiperDepartment of Biology, Norwegian University of Science and Technology, Trondheim, Norway.
Alfonso ValenciaBarcelona Supercomputing Center (BSC.), Barcelona, Spain.
Olaf WolkenhauerDepartment of Systems Biology & Bioinformatics, University of Rostock, Rostock, Germany.
Hiroaki KitanoSystems Biology Institute, Tokyo, Japan.
Emmanuel BarillotInstitut Curie, P.S.L. Research University, Paris, France.
Charles AuffrayAssociation E.I.S.B.M, Brignais, France.
Rudi BallingInstitute of Molecular Psychiatry, University of Bonn, Bonn, Germany.
Reinhard SchneiderLuxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg.
COVID-19 Disease Map Community
Funding
Software for collaborative construction, simulation, and analysis of mechanistic computational models of biological systemsR35GM119770 · NIGMS · UNIVERSITY OF NEBRASKA LINCOLN · PI Tomas Helikar · 2016 to 2026
$4.4MNIGMS NIH HHS R35 GM119770
Abstract
Introduction: The COVID-19 Disease Map project is a large-scale community effort uniting 277 scientists from 130 Institutions around the globe. We use high-quality, mechanistic content describing SARS-CoV-2-host interactions and develop interoperable bioinformatic pipelines for novel target identification and drug repurposing. Methods: Extensive community work allowed an impressive step forward in building interfaces between Systems Biology tools and platforms. Our framework can link biomolecules from omics data analysis and computational modelling to dysregulated pathways in a cell-, tissue- or patient-specific manner. Drug repurposing using text mining and AI-assisted analysis identified potential drugs, chemicals and microRNAs that could target the identified key factors. Results: Results revealed drugs already tested for anti-COVID-19 efficacy, providing a mechanistic context for their mode of action, and drugs already in clinical trials for treating other diseases, never tested against COVID-19. Discussion: The key advance is that the proposed framework is versatile and expandable, offering a significant upgrade in the arsenal for virus-host interactions and other complex pathologies.
Indexed as
COVID-19Computer SimulationDrug RepositioningHumansSARS-CoV-2Systems Biologydisease mapsdynamic modelslarge-scale community effortmechanistic modelsSARS-CoV-2systems biologysystems medicine
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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.