Authors: Sego, T. J.Aff1, IDs4159802345127x_cor1, Comlekoglu, TienAff2, Aff3, Peirce, Shayn M., Desimone, Douglas W., Glazier, James A.
Superior Title: Scientific Reports. 13(1)
Authors: Laubenbacher, Reinhard, Adler, Fred, An, Gary, Castiglione, Filippo, Eubank, Stephen, Fonseca, Luis L., Glazier, James, Helikar, Tomas, Jett-Tilton, Marti, Kirschner, Denise, Macklin, Paul, Mehrad, Borna, Moore, Beth, Pasour, Virginia, Shmulevich, Ilya, Smith, Amber, Voigt, Isabel, Yankeelov, Thomas E., Ziemssen, Tjalf
Subject Terms: Other Quantitative Biology q-bio.OT, FOS Biological sciences
Authors: Sego, T. J., Sluka, James P., Sauro, Herbert M., Glazier, James A.
Contributors: Kemp, Melissa L., National Institute of Biomedical Imaging and Bioengineering, National Science Foundation, National Institute of General Medical Sciences, U.S. Environmental Protection Agency, Lilly Endowment
Superior Title: PLOS Computational Biology ; volume 19, issue 10, page e1010768 ; ISSN 1553-7358
Subject Terms: Computational Theory and Mathematics, Cellular and Molecular Neuroscience, Genetics, Molecular Biology, Ecology, Modeling and Simulation, Ecology, Evolution, Behavior and Systematics
Availability: https://doi.org/10.1371/journal.pcbi.1010768
Authors: Chung, Trinity, Sego, T. J., Glazier, James A.
Superior Title: Journal of Advanced Technological Education (J ATE) Vol 2(1)
Subject Terms: CompuCell3D, Jupyter Notebook, cell modeling, virtual tissue, biology education
Relation: https://zenodo.org/record/7600786; https://doi.org/10.5281/zenodo.7600786; oai:zenodo.org:7600786
Superior Title: The Journal of Physical Chemistry B, 127 (16), 3607–3615 ; ISSN: 1520-6106, 1089-5647, 1520-5207
Subject Terms: ddc:004, DATA processing & computer science, info:eu-repo/classification/ddc/004
File Description: application/pdf
Relation: info:eu-repo/semantics/altIdentifier/wos/000967258200001; info:eu-repo/semantics/altIdentifier/issn/1520-6106; info:eu-repo/semantics/altIdentifier/issn/1089-5647; info:eu-repo/semantics/altIdentifier/issn/1520-5207; https://publikationen.bibliothek.kit.edu/1000158012; https://publikationen.bibliothek.kit.edu/1000158012/150677716; https://doi.org/10.5445/IR/1000158012
Superior Title: PLoS One
Subject Terms: Research Article
Relation: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC10309997/; http://dx.doi.org/10.1371/journal.pone.0287736
Authors: Erdem, Saliha, Titus, Anoop, Patel, Dhruvil, Patel, Neel N, Sattar, Yasar, Glazier, James, Alraies, M. Chadi
Superior Title: Cureus
Subject Terms: Cardiology
Relation: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC10166724/; http://dx.doi.org/10.7759/cureus.37310
Subject Terms: Computer Science - Machine Learning, Condensed Matter - Disordered Systems and Neural Networks
Relation: http://arxiv.org/abs/2302.03786
Availability: http://arxiv.org/abs/2302.03786
Authors: Laubenbacher, Reinhard, Adler, Fred, An, Gary, Castiglione, Filippo, Eubank, Stephen, Fonseca, Luis L, Glazier, James, Helikar, Tomas, Jett-Tilton, Marti, Kirschner, Denise, Macklin, Paul, Mehrad, Borna, Moore, Beth, Pasour, Virginia, Shmulevich, Ilya, Smith, Amber, Voigt, Isabel, Yankeelov, Thomas E, Ziemssen, Tjalf
Superior Title: Articles, Abstracts, and Reports
Subject Terms: washington, isb, machine learning, Artificial Intelligence and Robotics
Relation: https://digitalcommons.providence.org/publications/8627; https://pubmed.ncbi.nlm.nih.gov/38515550
Availability:
https://digitalcommons.providence.org/publications/8627
https://pubmed.ncbi.nlm.nih.gov/38515550
Authors: Laubenbacher, Reinhard, Adler, Fred, An, Gary, Castiglione, Filippo, Eubank, Stephen, Fonseca, Luis L, Glazier, James, Helikar, Tomas, Jett-Tilton, Marti, Kirschner, Denise, Macklin, Paul, Mehrad, Borna, Moore, Beth, Pasour, Virginia, Shmulevich, Ilya, Smith, Amber, Voigt, Isabel, Yankeelov, Thomas E, Ziemssen, Tjalf
Superior Title: Articles, Abstracts, and Reports
Subject Terms: washington, isb, machine learning, Humans, Databases, Factual, Precision Medicine, Artificial Intelligence and Robotics, Databases and Information Systems, Medical Biotechnology
Relation: https://digitalcommons.providence.org/publications/8539; https://pubmed.ncbi.nlm.nih.gov/38365857
Availability:
https://digitalcommons.providence.org/publications/8539
https://pubmed.ncbi.nlm.nih.gov/38365857
Authors: Glazier, Margaret Mary, Glazier, James J.
Superior Title: International Journal of Angiology ; ISSN 1061-1711 1615-5939
Subject Terms: Cardiology and Cardiovascular Medicine
Availability: https://doi.org/10.1055/s-0044-1779661
Authors: de Almeida, Rita M.C., Giardini, Guilherme S.Y., Vainstein, Mendeli, Glazier, James A., Thomas, Gilberto L.
Superior Title: In Physica A: Statistical Mechanics and its Applications 1 February 2022 587
Superior Title: In Current Opinion in Virology October 2021 50:103-109
Authors: Karr, Jonathan, Malik-Sheriff, Rahuman S., Osborne, James, Gonzalez-Parra, Gilberto, Forgoston, Eric, Bowness, Ruth, Liu, Yaling, Thompson, Robin, Garira, Winston, Barhak, Jacob, Rice, John, Torres, Marcella, Dobrovolny, Hana M., Tang, Tingting, Waites, William, Glazier, James A., Faeder, James R., Kulesza, Alexander
Subject Terms: Electronic computers. Computer science, Mathematics, Immunology, Biology
File Description: text
Relation: https://strathprints.strath.ac.uk/79975/1/Karr_etal_FSB_2022_Model_integration_in_computational_biology_the_role_of_reproducibility_credibility_utility.pdf; Karr, Jonathan and Malik-Sheriff, Rahuman S. and Osborne, James and Gonzalez-Parra, Gilberto and Forgoston, Eric and Bowness, Ruth and Liu, Yaling and Thompson, Robin and Garira, Winston and Barhak, Jacob and Rice, John and Torres, Marcella and Dobrovolny, Hana M. and Tang, Tingting and Waites, William and Glazier, James A. and Faeder, James R. and Kulesza, Alexander (2022 ) Model integration in computational biology : the role of reproducibility, credibility and utility. Frontiers in Systems Biology , 2. 822606. ISSN 2674-0702
Subject Terms: Gene, COVID-19 (Doença), Transcriptograma
File Description: application/pdf
Relation: NAR Genomics and Bioinformatics. Oxford. Vol. 4, no. 1 (Mar. 2022), lqac020, 14 p.; http://hdl.handle.net/10183/237339; 001139852
Availability: http://hdl.handle.net/10183/237339
Authors: Niarakis, Anna, Waltemath, Dagmar, Glazier, James, Schreiber, Falk, Keating, Sarah, Nickerson, David, Chaouiya, Claudine, Siegel, Anne, Noël, Vincent, Hermjakob, Henning, Helikar, Tomáš, Soliman, Sylvain, Calzone, Laurence
Contributors: Laboratoire de recherche européen pour la polyarthrite rhumatoïde (GenHotel), Université d'Évry-Val-d'Essonne (UEVE)-Université Paris-Saclay, Computational systems biology and optimization (Lifeware), Inria Saclay - Ile de France, Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria), University of Medicine Greifswald, Indiana University Bloomington, Indiana University System, University of Konstanz, Monash University Melbourne, University College of London London (UCL), University of Auckland Auckland, Institut de Mathématiques de Marseille (I2M), Aix Marseille Université (AMU)-École Centrale de Marseille (ECM)-Centre National de la Recherche Scientifique (CNRS), Dynamics, Logics and Inference for biological Systems and Sequences (Dyliss), Inria Rennes – Bretagne Atlantique, Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria)-GESTION DES DONNÉES ET DE LA CONNAISSANCE (IRISA-D7), Institut de Recherche en Informatique et Systèmes Aléatoires (IRISA), Université de Rennes (UR)-Institut National des Sciences Appliquées - Rennes (INSA Rennes), Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Université de Bretagne Sud (UBS)-École normale supérieure - Rennes (ENS Rennes)-Institut National de Recherche en Informatique et en Automatique (Inria)-CentraleSupélec-Centre National de la Recherche Scientifique (CNRS)-IMT Atlantique (IMT Atlantique), Institut Mines-Télécom Paris (IMT)-Institut Mines-Télécom Paris (IMT)-Université de Rennes (UR)-Institut National des Sciences Appliquées - Rennes (INSA Rennes), Institut Mines-Télécom Paris (IMT)-Institut Mines-Télécom Paris (IMT)-Institut de Recherche en Informatique et Systèmes Aléatoires (IRISA), Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Université de Bretagne Sud (UBS)-École normale supérieure - Rennes (ENS Rennes)-CentraleSupélec-Centre National de la Recherche Scientifique (CNRS)-IMT Atlantique (IMT Atlantique), Institut Mines-Télécom Paris (IMT)-Institut Mines-Télécom Paris (IMT), Centre de Bioinformatique (CBIO), Mines Paris - PSL (École nationale supérieure des mines de Paris), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL), European Bioinformatics Institute Hinxton (EMBL-EBI), EMBL Heidelberg, University of Nebraska–Lincoln, University of Nebraska System, ANR-17-CE40-0036,SYMBIONT,Méthodes symboliques pour les réseaux biologiques(2017)
Superior Title: ISSN: 1467-5463.
Subject Terms: computational modelling, model annotations, reproducibility, systems biology, community standards, [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM]
Relation: hal-03690604; https://inria.hal.science/hal-03690604; https://inria.hal.science/hal-03690604/document; https://inria.hal.science/hal-03690604/file/Addressing%2520barriers%2520in%2520comprehensiveness%252C%2520accessibility%252C%2520reusability%252C%2520interoperability%2520and%2520reproducibility%2520of%2520computational%2520.pdf
Availability:
https://doi.org/10.1093/bib/bbac212
https://inria.hal.science/hal-03690604
https://inria.hal.science/hal-03690604/document
https://inria.hal.science/hal-03690604/file/Addressing%2520barriers%2520in%2520comprehensiveness%252C%2520accessibility%252C%2520reusability%252C%2520interoperability%2520and%2520reproducibility%2520of%2520computational%2520.pdf
Superior Title: Int J Angiol
Relation: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9507552/; http://www.ncbi.nlm.nih.gov/pubmed/36157095; http://dx.doi.org/10.1055/s-0042-1750328
Authors: Piatkowska, Agnieszka M., Adhikari, Kaustubh, Moverley, Adam A., Turmaine, Mark, Glazier, James A., Plachta, Nicolas, Evans, Susan E., Stern, Claudio D.
Superior Title: J Anat
Subject Terms: Original Articles
Relation: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9919497/; http://www.ncbi.nlm.nih.gov/pubmed/36423208; http://dx.doi.org/10.1111/joa.13791
Superior Title: NAR Genom Bioinform
Subject Terms: Standard Article
Relation: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8923009/; http://dx.doi.org/10.1093/nargab/lqac020
Authors: Gianlupi, Juliano Ferrari, Mapder, Tarunendu, Sego, T.J., Sluka, James P., Quinney, Sara K., Craig, Morgan, Stratford, Robert E., Jr., Glazier, James A.
Contributors: Medicine, School of Medicine
Superior Title: PMC
Subject Terms: SARS-CoV-2, Agent-based model, Antiviral therapy, mPBPK, Multiscale model, Remdesivir, Tissue model, Virtual tissue simulation
File Description: application/pdf
Relation: Viruses; Ferrari Gianlupi J, Mapder T, Sego TJ, et al. Multiscale Model of Antiviral Timing, Potency, and Heterogeneity Effects on an Epithelial Tissue Patch Infected by SARS-CoV-2. Viruses. 2022;14(3):605. Published 2022 Mar 14. doi:10.3390/v14030605; https://hdl.handle.net/1805/33003