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Items: 1 to 20 of 111

1.

BioModels Database: a repository of mathematical models of biological processes.

Chelliah V, Laibe C, Le Novère N.

Methods Mol Biol. 2013;1021:189-99. doi: 10.1007/978-1-62703-450-0_10.

PMID:
23715986
2.

BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models.

Li C, Donizelli M, Rodriguez N, Dharuri H, Endler L, Chelliah V, Li L, He E, Henry A, Stefan MI, Snoep JL, Hucka M, Le Novère N, Laibe C.

BMC Syst Biol. 2010 Jun 29;4:92. doi: 10.1186/1752-0509-4-92.

3.

BioModels Database: a free, centralized database of curated, published, quantitative kinetic models of biochemical and cellular systems.

Le Novère N, Bornstein B, Broicher A, Courtot M, Donizelli M, Dharuri H, Li L, Sauro H, Schilstra M, Shapiro B, Snoep JL, Hucka M.

Nucleic Acids Res. 2006 Jan 1;34(Database issue):D689-91.

4.

BioModels.net Web Services, a free and integrated toolkit for computational modelling software.

Li C, Courtot M, Le Novère N, Laibe C.

Brief Bioinform. 2010 May;11(3):270-7. doi: 10.1093/bib/bbp056. Epub 2009 Nov 25.

5.

BioModels: ten-year anniversary.

Chelliah V, Juty N, Ajmera I, Ali R, Dumousseau M, Glont M, Hucka M, Jalowicki G, Keating S, Knight-Schrijver V, Lloret-Villas A, Natarajan KN, Pettit JB, Rodriguez N, Schubert M, Wimalaratne SM, Zhao Y, Hermjakob H, Le Novère N, Laibe C.

Nucleic Acids Res. 2015 Jan;43(Database issue):D542-8. doi: 10.1093/nar/gku1181. Epub 2014 Nov 20.

6.

BioModels linked dataset.

Wimalaratne SM, Grenon P, Hermjakob H, Le Novère N, Laibe C.

BMC Syst Biol. 2014 Aug 15;8:91. doi: 10.1186/s12918-014-0091-5.

7.

An online model composition tool for system biology models.

Coskun SA, Cicek AE, Lai N, Dash RK, Ozsoyoglu ZM, Ozsoyoglu G.

BMC Syst Biol. 2013 Sep 5;7:88. doi: 10.1186/1752-0509-7-88.

8.

Integrating BioPAX pathway knowledge with SBML models.

Ruebenacker O, Moraru II, Schaff JC, Blinov ML.

IET Syst Biol. 2009 Sep;3(5):317-28. doi: 10.1049/iet-syb.2009.0007.

PMID:
21028923
9.

Model storage, exchange and integration.

Le Novère N.

BMC Neurosci. 2006 Oct 30;7 Suppl 1:S11.

10.

BioPP: a tool for web-publication of biological networks.

Viswanathan GA, Nudelman G, Patil S, Sealfon SC.

BMC Bioinformatics. 2007 May 22;8:168.

11.

A C library for retrieving specific reactions from the BioModels database.

Neal ML, Galdzicki M, Gallimore JT, Sauro HM.

Bioinformatics. 2014 Jan 1;30(1):129-30. doi: 10.1093/bioinformatics/btt567. Epub 2013 Sep 29.

12.

Combining computational models, semantic annotations and simulation experiments in a graph database.

Henkel R, Wolkenhauer O, Waltemath D.

Database (Oxford). 2015 Mar 8;2015. pii: bau130. doi: 10.1093/database/bau130. Print 2015.

13.

Virtual Cell modelling and simulation software environment.

Moraru II, Schaff JC, Slepchenko BM, Blinov ML, Morgan F, Lakshminarayana A, Gao F, Li Y, Loew LM.

IET Syst Biol. 2008 Sep;2(5):352-62. doi: 10.1049/iet-syb:20080102.

14.

Ranked retrieval of Computational Biology models.

Henkel R, Endler L, Peters A, Le Novère N, Waltemath D.

BMC Bioinformatics. 2010 Aug 11;11:423. doi: 10.1186/1471-2105-11-423.

15.

A data integration approach for cell cycle analysis oriented to model simulation in systems biology.

Alfieri R, Merelli I, Mosca E, Milanesi L.

BMC Syst Biol. 2007 Aug 1;1:35.

16.

A graphical method for reducing and relating models in systems biology.

Gay S, Soliman S, Fages F.

Bioinformatics. 2010 Sep 15;26(18):i575-81. doi: 10.1093/bioinformatics/btq388.

17.

An editor for pathway drawing and data visualization in the Biopathways Workbench.

Byrnes RW, Cotter D, Maer A, Li J, Nadeau D, Subramaniam S.

BMC Syst Biol. 2009 Oct 2;3:99. doi: 10.1186/1752-0509-3-99.

18.
19.

Qualitative translation of relations from BioPAX to SBML qual.

Büchel F, Wrzodek C, Mittag F, Dräger A, Eichner J, Rodriguez N, Le Novère N, Zell A.

Bioinformatics. 2012 Oct 15;28(20):2648-53. doi: 10.1093/bioinformatics/bts508. Epub 2012 Aug 24.

20.

Using chemical organization theory for model checking.

Kaleta C, Richter S, Dittrich P.

Bioinformatics. 2009 Aug 1;25(15):1915-22. doi: 10.1093/bioinformatics/btp332. Epub 2009 May 25.

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