ArticleArXiv2025
From FAIR to CURE: Guidelines for Computational Models of Biological Systems.
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In one paragraph
Article in ArXiv, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
0numbers the graph read from it
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0citing papers in PubMed
–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
0 citing papers in PubMed.
No citing paper in PubMed yet.
Corrections and comments
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Authors and funding
51 authors.
Herbert M SauroDepartment of Bioengineering, University of Washington, Seattle, 98195-5061, WA, USA.
Eran AgmonCenter for Cell Analysis and Modeling, UConn Health, 263 Farmington Avenue, Farmington, 06030-6406, Connecticut, USA.
Michael L BlinovCenter for Cell Analysis and Modeling, UConn Health, 263 Farmington Avenue, Farmington, 06030-6406, Connecticut, USA.
John H GennariDepartment of Biomedical Informatics & Medical Education, University of Washington, 1959 NE Pacific Street, 98195, Seattle, Washington, USA.
Joe HellersteineScience Institute, University of Washington, Seattle, 98195-5061, WA, USA.
Adel HeydarabadipourDepartment of Bioengineering, University of Washington, Seattle, 98195-5061, WA, USA.
Peter HunterAuckland Bioengineering Institute, University of Auckland, Auckland, 1010, New Zealand.
Bartholomew E JardineDepartment of Bioengineering, University of Washington, Seattle, 98195-5061, WA, USA.
Elebeoba MayWisconsin Institute for Discovery, University of Wisconsin-Madison, 330 North Orchard Street, 53715, Madison, WI, USA.
David P NickersonAuckland Bioengineering Institute, University of Auckland, Auckland, 1010, New Zealand.
Lucian P SmithDepartment of Bioengineering, University of Washington, Seattle, 98195-5061, WA, USA.
Gary D BaderThe Donnelly Centre, University of Toronto, 160 College St, M5S 3E1, Toronto, Ontario, Canada.
Frank BergmannCOS Heidelberg, Heidelberg University, Im Neuenheimer Feld 230, 69120, Heidelberg, Germany.
Patrick M BoyleDepartment of Bioengineering, University of Washington, Seattle, 98195-5061, WA, USA.
Andreas DrägerGerman Center for Infection Research (DZIF), partner site Tübingen, Tübingen, Germany.
James R FaederDepartment of Computational and Systems Biology, University of Pittsburgh, 3500 Fifth Avenue, 15213, Pittsburgh, Pennsylvania, USA.
Song FengBiological Sciences Division, Pacific Northwest National Laboratory, 902 Battelle Blvd, Richland, 99354, WA, USA.
Juliana FreireDepartment of Computer Science and Center for Data Science, New York University, New York, NY, 11201, New York, USA.
Fabian FröhlichDynamics of Living Systems Laboratory, The Francis Crick Institute, 1 Midland Road, NW1 1AT, London, UK.
James A GlazierIntelligent Systems Engineering and Biocomplexity Institute, Indiana University, Street, Bloomington, 47408, Indiana, USA.
Thomas E GorochowskiSchool of Biological Sciences, University of Bristol, 24 Tyndall Avenue, Bristol, BS8 1TQ, UK.
Tomas HelikarDepartment of Biochemistry, University of Nebraska-Lincoln, Beadle Center, 68588-0664, Lincoln NE, USA.
Stefan HoopsBiocomplexity Institute, University of Virginia, Town Center Four, 3rd Floor, 994 Research Park Boulevard, 22911, Charlottesville, VA, USA.
Princess ImoukhuedeDepartment of Bioengineering, University of Washington, Seattle, 98195-5061, WA, USA.
Sarah M KeatingAdvanced Research Computing Centre, University College London, Philippstraße 13, WC1E 6BT, London, UK.
Matthias KonigInstitute for Biology, Institute for Theoretical Biology, Humboldt-University Berlin, Philippstraße 13, 10115, Berlin, Germany.
Reinhard LaubenbacherDepartment of Medicine, University of Florida, 1600 SW Archer Rd, 32610-0225, Gainesville, Florida, USA.
Leslie M LoewCenter for Cell Analysis and Modeling, UConn Health, 263 Farmington Avenue, Farmington, 06030-6406, Connecticut, USA.
Carlos F LopezMultiscale Modeling Group, Altos Labs, 94065, Redwood City, CA, USA.
William W LyttonDepartments of Physiology & Pharmacology, Neurology, Downstate Health Science University, Brooklyn, 11203, NY, USA.
Andrew McCullochDepartments of Bioengineering and Medicine, University of California San Diego, 9500 Gilman Drive, 92093-0412, La Jolla, CA, USA.
Pedro MendesCenter for Cell Analysis and Modeling, UConn Health, 263 Farmington Avenue, Farmington, 06030-6406, Connecticut, USA.
Chris J MyersDepartment of Electrical, Computer, and Energy Engineering, University of Colorado Boulder, 425 UCB, Boulder, 80309, Colorado, USA.
Jerry G MyersNASA-John H. Glenn Research Center, MS 110-3, 21000 Brookpark Road, Cleveland, 44135, Ohio, USA.
Lealem MulugetaInSilico Labs LLC, InSilico Labs LLC, 77008, Houston, Texas, USA.
Anna NiarakisMolecular, Cellular and Developmental Biology Unit (MCD), Center of Integrative Biology, University of Toulouse III-Paul Sabatier, 165 Rue Marianne Grunberg-Manago, Toulouse, 31400, France.
David D van NiekerkWisconsin Institute for Discovery, University of Wisconsin-Madison, 330 North Orchard Street, 53715, Madison, WI, USA.
Brett G OlivierAmsterdam Institute for Life and Environment, Vrije Universiteit Amsterdam, De Boelelaan 1108, 1081 HZ, Amsterdam, Netherlands.
Alexander A PatrieCenter for Cell Analysis and Modeling, UConn Health, 263 Farmington Avenue, Farmington, 06030-6406, Connecticut, USA.
Ellen M QuardokusIntelligent Systems Engineering and Biocomplexity Institute, Indiana University, Street, Bloomington, 47408, Indiana, USA.
Nicole RaddeInstitute for Stochastics and Applications, University of Stuttgart, Pfaffenwaldring 9, 70569, Stuttgart, Germany.
Johann M RohwerDepartment of Biochemistry, University of Stellenbosch, Private Bag X1, 7602, Matieland, South Africa.
Sven SahleBioQuant, Im Neuenheimer Feld 267, 69120, Heidelberg, Germany.
James C SchaffCenter for Cell Analysis and Modeling, UConn Health, 263 Farmington Avenue, Farmington, 06030-6406, Connecticut, USA.
T J SegoDepartment of Medicine, University of Florida, 1600 SW Archer Rd, 32610-0225, Gainesville, Florida, USA.
Janis ShinDepartment of Bioengineering, University of Washington, Seattle, 98195-5061, WA, USA.
Jacky L SnoepDepartment of Biochemistry, University of Stellenbosch, Private Bag X1, 7602, Matieland, South Africa.
Rajanikanth VadigepalliDepartment of Pathology and Genomic Medicine, Thomas Jefferson University, 1020 Locust St, Philadelphia, 19107, Pennsylvania, USA.
H Steve WileyBiological Sciences Division, Pacific Northwest National Laboratory, 902 Battelle Blvd, Richland, 99354, WA, USA.
Dagmar WaltemathMedical Informatics Laboratory, University Medicine Greifswald, D-17489, Greifswald, Germany.
Ion MoraruCenter for Cell Analysis and Modeling, UConn Health, 263 Farmington Avenue, Farmington, 06030-6406, Connecticut, USA.
Funding
TR&D 3 - Network Guided Machine LearningP41GM103504 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI IDEKER, TREY · 2012 to 2024
$17.3MTR&D3: Standards and Tools for Simulator Composition and Credibility portalP41EB023912 · NIBIB · UNIVERSITY OF WASHINGTON · PI HERBERT M. SAURO · 2018 to 2026
$11.4MMechanistic Modeling of Cellular SystemsR24GM137787 · NIGMS · UNIVERSITY OF CONNECTICUT SCH OF MED/DNT · PI Pedro Mendes, Ion I. Moraru · 2020 to 2026
$8.9MEthanol Effects on the Transcriptional Regulatory Network in Liver Regeneration -R01AA018873 · NIAAA · THOMAS JEFFERSON UNIVERSITY · PI SRIVASTAVA, ANKITA · 2009 to 2025
$8.7MMultiscale modeling of the role of heme during invasive pulmonary aspergillosisR01AI135128 · NIAID · UNIVERSITY OF FLORIDA · PI REINHARD LAUBENBACHER, Borna Mehrad · 2018 to 2026
$4.9MWESTPA: A high-performance framework for simulating at the frontiers of biologyR01GM115805 · NIGMS · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI LILLIAN T CHONG · 2015 to 2026
$4.0MMechanistic modeling of the innate immune responses of the human lung to understand the inter-individual heterogeneity of COVID-19 pneumoniaR01HL169974 · NHLBI · UNIVERSITY OF FLORIDA · PI REINHARD LAUBENBACHER, Borna Mehrad · 2023 to 2026
$2.9MMolecular Neurogenetics of the Brainstem Neuronal Source of Cardioprotective Vagal OutflowR01HL161696 · NHLBI · THOMAS JEFFERSON UNIVERSITY · PI SCHWABER, JAMES, VADIGEPALLI, RAJANIKANTH · 2022 to 2025
$2.3MNHLBI NIH HHS R01 HL161696NHLBI NIH HHS R01 HL169974NIAAA NIH HHS R01 AA018873NIAID NIH HHS R01 AI135128NIBIB NIH HHS P41 EB023912NIGMS NIH HHS P41 GM103504NIGMS NIH HHS R01 GM115805NIGMS NIH HHS R24 GM137787Wellcome Trust CC2242
Abstract
Guidelines for managing scientific data have been established under the FAIR principles requiring that data be Findable, Accessible, Interoperable, and Reusable. In many scientific disciplines, especially computational biology, both data and
Identifiers
PMID
40034129PMC
PMC11875277What OpenQuestion holds
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LicenceCC BY
Read underepoch 390
Registered trials
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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.