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

Keating, Sarah; Waltemath, Dagmar; König, Matthias; Zhang, Fengkai; Dräger, Andreas; Chaouiya, Claudine; Bergmann, Frank; Finney, Andrew; S. Gillespie, Colin; Helikar, Tomáš; Hoops, Stefan; S. Malik‐Sheriff, Rahuman; Moodie, Stuart; I. Moraru, Ion; J. Myers, Chris; Naldi, Aurélien; G. Olivier, Brett; Sahle, Sven; C. Schaff, James; P. Smith, Lucian; J. Swat, Maciej; Thieffry, Denis; Watanabe, Leandro; J. Wilkinson, Darren; L. Blinov, Michael; Begley, Kimberly; R. Faeder, James; Gómez, Harold; M. Hamm, Thomas; Inagaki, Yuichiro; Liebermeister, Wolfram; Lister, Allyson; Lucio, Daniel; Mjolsness, Eric; J. Proctor, Carole; Raman, Karthik; Rodríguez, Nicolás; A. Shaffer, Clifford; E. Shapiro, Bruce; Stelling, Joerg; Swainston, Neil; Tanimura, Naoki; Wagner, John; Meier‐Schellersheim, Martin; M. Sauro, Herbert; Ø. Palsson, Bernhard; Bolouri, Hamid; Kitano, Hiroaki; Funahashi, Akira; Hermjakob, Henning; C. Doyle, John; Hucka, Michael; Level 3 Community members, SBML; R. Adams, Richard; Allen, Nicholas; R. Angermann, Bastian; Antoniotti, Marco; D. Bader, Gary; Červený, Jan; Courtot, Mélanie; D. Cox, Chris; Dalle Pezze, Piero; Demir, Emek; S. Denney, William; Dharuri, Harish; Dorier, Julien; Drasdo, Dirk; Ebrahim, Ali; Eichner, Johannes; Elf, Johan; Endler, Lukas; T. Evelo, Chris; Flamm, Christoph; M. T. Fleming, Ronan; Fröhlich, Martina; Glont, Mihai; Gonçalves, Emanuel; Golebiewski, Martin; Grabski, Hovakim; Gutteridge, Alex; Hachmeister, Damon; A. Harris, Leonard; Heavner, Ben; Henkel, Ron; S. Hlavacek, William; Hu, Bin; R. Hyduke, Daniel; de Jong, Hidde; Juty, Nick; D. Karp, Peter; R Karr, Jonathan; B. Kell, Douglas; Keller, Roland; Kiselev, Ilya; Klamt, Steffen; Klipp, Edda; Knüpfer, Christian; Kolpakov, Fedor; Krause, Falko; Kutmon, Martina; Laibe, Camille; Lawless, Conor; Li, Lu; M. Loew, Leslie; Machné, Rainer; Matsuoka, Yukiko; Mendes, Pedro; Mi, Huaiyu; Mittag, Florian; T. Monteiro, Pedro; Nath Natarajan, Kedar; MF Nielsen, Poul; Nguyen, Tramy; Palmisano, Alida; Pettit, Jean‐Baptiste; Pfau, Thomas; D. Phair, Robert; Radivoyevitch, Tomas; M. Rohwer, Johann; Ruebenacker, Oliver; Sáez-Rodríguez, Julio; Scharm, Martin; Schmidt, Henning; Schreiber, Falk; Schubert, Michaël; Schulte, Roman; C. Sealfon, Stuart; Smallbone, Kieran; Soliman, Sylvain; I. Stefan, Melanie; P. Sullivan, Devin; Takahashi, Koichi; Teusink, Bas; Tolnay, David; Vazirabad, Ibrahim; von Kamp, Axel; Wittig, Ulrike; Wrzodek, Clemens; Wrzodek, Finja; Xénarios, Ioannis; Zhukova, Anna; Zucker, Jeremy

doi:10.15252/msb.20199110

Public

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

Published in Molecular Systems Biology • Aug 1, 2020

Authors:

Sarah Keating

Dagmar Waltemath

Matthias König

Abstract

Systems biology has experienced dramatic growth in the number, size, and complexity of computational models. To reproduce simulation results and reuse models, researchers must exchange unambiguous model descriptions. We review the latest edition of the Systems Biology Markup Language (SBML), a forma...

Subject

Library science

SBML

Computer science

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