Search Results - "Bergmann FT"

From FAIR to CURE: guidelines for computational models of biological systems.

Authors: Sauro, Herbert M. Agmon, Eran Blinov, Michael L. et al.

Source: NPJ Systems Biology & Applications. 3/27/2026, Vol. 12 Issue 1, p1-11. 11p.

Verification and reproducible curation of the BioModels repository.

Authors: Smith, Lucian P. Malik-Sheriff, Rahuman S. Nguyen, Tung V. N. et al.

Source: PLoS Computational Biology. 12/4/2025, Vol. 21 Issue 12, p1-18. 18p.

Data-driven model reveals increased stability of CAG-expanded huntingtin RNA due to MID1 binding.

Authors: Liu, Yuhong Reisbitzer, Annika Dorešić, Domagoj et al.

Source: PLoS Computational Biology. 6/2/2026, Vol. 22 Issue 6, p1-27. 27p.

Talk2Biomodels: AI agent-based open-source LLM initiative for kinetic biological models.

Authors: Wehling, Lilija Singh, Gurdeep Mulyadi, Ahmad Wisnu et al.

Source: BMC Bioinformatics. 11/18/2025, Vol. 26 Issue 1, p1-9. 9p.

A standardized workflow for kinetic metabolic model curation and dissemination.

Authors: Cook, Margaret Anastasakis, Stella Heydarabadipour, Adel et al.

Source: PLoS Computational Biology. 4/20/2026, Vol. 22 Issue 4, p1-22. 22p.

Enzyme-constrained genome-scale model of Yarrowia lipolytica predicts growth-phase specific metabolic engineering targets.

Authors: De Biaggi, Juliano Sabedotti Park, Young-Kyoung Kerkhoven, Eduard J. et al.

Source: Applied Microbiology & Biotechnology; 3/24/2026, Vol. 110 Issue 1, p1-21, 21p

Systems biology during 20 years of PLoS Computational Biology.

Authors: Alber, Mark Birtwistle, Marc R. Finley, Stacey D. et al.

Source: PLoS Computational Biology. 7/10/2026, Vol. 22 Issue 7, p1-6. 6p.

MobsPy: A programming language for biochemical reaction networks.

Authors: Cravo, Fabricio Prakash, Gayathri Függer, Matthias et al.

Source: PLoS Computational Biology. 5/19/2025, Vol. 21 Issue 5, p1-33. 33p.

Competition and cooperation: The plasticity of bacterial interactions across environments.

Authors: Solowiej-Wedderburn, Josephine Pentz, Jennifer T. Lizana, Ludvig et al.

Source: PLoS Computational Biology. 7/24/2025, Vol. 21 Issue 7, p1-30. 30p.

SBMLNetwork: A framework for standards-based visualization of biochemical models.

Authors: Heydarabadipour, Adel Smith, Lucian Hellerstein, Joseph L. et al.

Source: PLoS Computational Biology. 9/22/2025, Vol. 21 Issue 9, p1-18. 18p.

Metabolic modelling as a powerful tool to identify critical components of Pneumocystis growth medium.

Authors: Nev, Olga A. Zamaraeva, Elena De Oliveira, Romain et al.

Source: PLoS Computational Biology. 10/28/2024, Vol. 20 Issue 10, p1-27. 27p.

Activity assays for flavoprotein oxidases: an overview.

Authors: Santema LL Fraaije MW

Source: Applied microbiology and biotechnology [Appl Microbiol Biotechnol] 2025 May 08; Vol. 109 (1), pp. 115. Date of Electronic Publication: 2025 May 08.

Publication Type: Journal Article; Review

Journal Info: Publisher: Springer International Country of Publication: Germany NLM ID: 8406612 Publication Model: Electronic Cited Medium: Internet ISSN: 1432-0614 (Electronic) Linking ISSN: 01757598 NLM ISO Abbreviation: Appl Microbiol Biotechnol Subsets: MEDLINE

Understanding disease-associated metabolic changes in human colonic epithelial cells using the iColonEpithelium metabolic reconstruction.

Authors: Jiang, Boyu Quinn-Bohmann, Nick Diener, Christian et al.

Source: PLoS Computational Biology. 7/3/2025, Vol. 21 Issue 7, p1-17. 17p.

Integrated mathematical and experimental modeling uncovers enhanced EMT plasticity upon loss of the DLC1 tumor suppressor.

Authors: Höpfl, Sebastian Özverin, Merih Nowack, Helena et al.

Source: PLoS Computational Biology. 5/12/2025, Vol. 21 Issue 5, p1-20. 20p.

Mathematical basis and toolchain for hierarchical optimization of biochemical networks.

Authors: Viswan, Nisha Ann Tribut, Alexandre Gasparyan, Manvel et al.

Source: PLoS Computational Biology. 12/2/2024, Vol. 20 Issue 12, p1-31. 31p.

Immune digital twins for complex human pathologies: applications, limitations, and challenges.

Authors: Niarakis, Anna Laubenbacher, Reinhard An, Gary et al.

Source: NPJ Systems Biology & Applications. 11/30/2024, Vol. 10 Issue 1, p1-14. 14p.

A quantitative description of light-limited cyanobacterial growth using flux balance analysis.

Authors: Höper, Rune Komkova, Daria Zavřel, Tomáš et al.

Source: PLoS Computational Biology. 8/5/2024, Vol. 20 Issue 8, p1-28. 28p.

SBML Level 3: an extensible format for the exchange and reuse of biological models.

Authors: Keating, Sarah M Waltemath, Dagmar König, Matthias et al.

Source: Molecular Systems Biology. Aug2020, Vol. 16 Issue 8, p1-21. 21p.

A rule-based simulation model illuminates the role of asymmetric mitochondrial fission on beta-cell health.

Authors: Henning, Philipp Schultz, Julia Baltrusch, Simone et al.

Source: NPJ Systems Biology & Applications. 5/5/2026, Vol. 12 Issue 1, p1-13. 13p.

RBC-GEM: A genome-scale metabolic model for systems biology of the human red blood cell.

Authors: Haiman, Zachary B. Key, Alicia D'Alessandro, Angelo et al.

Source: PLoS Computational Biology. 3/12/2025, Vol. 21 Issue 3, p1-48. 48p.