Format
Sort by

Send to

Choose Destination

Links from PubMed

Items: 1 to 20 of 108

1.

Morpheus: a user-friendly modeling environment for multiscale and multicellular systems biology.

Starruß J, de Back W, Brusch L, Deutsch A.

Bioinformatics. 2014 May 1;30(9):1331-2. doi: 10.1093/bioinformatics/btt772. Epub 2014 Jan 17.

2.

ELECANS--an integrated model development environment for multiscale cancer systems biology.

Chaudhary SU, Shin SY, Lee D, Song JH, Cho KH.

Bioinformatics. 2013 Apr 1;29(7):957-9. doi: 10.1093/bioinformatics/btt063. Epub 2013 Feb 6.

3.

MONALISA for stochastic simulations of Petri net models of biochemical systems.

Balazki P, Lindauer K, Einloft J, Ackermann J, Koch I.

BMC Bioinformatics. 2015 Jul 10;16:215. doi: 10.1186/s12859-015-0596-y. Erratum in: BMC Bioinformatics. 2015;16:371.

4.

A software framework for multiscale and multilevel physiological model integration and simulation.

Erson EZ, Cavuşoğlu MC.

Conf Proc IEEE Eng Med Biol Soc. 2008;2008:5449-53. doi: 10.1109/IEMBS.2008.4650447.

PMID:
19163950
5.

Systems Biology Toolbox for MATLAB: a computational platform for research in systems biology.

Schmidt H, Jirstrand M.

Bioinformatics. 2006 Feb 15;22(4):514-5. Epub 2005 Nov 29.

6.

Multiscale models for synthetic biology.

Kaznessis YN.

Conf Proc IEEE Eng Med Biol Soc. 2009;2009:6408-11. doi: 10.1109/IEMBS.2009.5333516.

PMID:
19964167
7.

Mathematical modeling of biochemical systems with PottersWheel.

Maiwald T, Eberhardt O, Blumberg J.

Methods Mol Biol. 2012;880:119-38. doi: 10.1007/978-1-61779-833-7_8. Review.

PMID:
23361985
8.

Modeling biochemical transformation processes and information processing with Narrator.

Mandel JJ, Fuss H, Palfreyman NM, Dubitzky W.

BMC Bioinformatics. 2007 Mar 27;8:103.

9.

Web-based workflow planning platform supporting the design and execution of complex multiscale cancer models.

Sakkalis V, Sfakianakis S, Tzamali E, Marias K, Stamatakos G, Misichroni F, Ouzounoglou E, Kolokotroni E, Dionysiou D, Johnson D, McKeever S, Graf N.

IEEE J Biomed Health Inform. 2014 May;18(3):824-31. doi: 10.1109/JBHI.2013.2297167.

PMID:
24808225
10.

Robust optimal design of experiments for model discrimination using an interactive software tool.

Stegmaier J, Skanda D, Lebiedz D.

PLoS One. 2013;8(2):e55723. doi: 10.1371/journal.pone.0055723. Epub 2013 Feb 4.

11.

SYCAMORE--a systems biology computational analysis and modeling research environment.

Weidemann A, Richter S, Stein M, Sahle S, Gauges R, Gabdoulline R, Surovtsova I, Semmelrock N, Besson B, Rojas I, Wade R, Kummer U.

Bioinformatics. 2008 Jun 15;24(12):1463-4. doi: 10.1093/bioinformatics/btn207. Epub 2008 May 7.

12.

STSE: Spatio-Temporal Simulation Environment Dedicated to Biology.

Stoma S, Fröhlich M, Gerber S, Klipp E.

BMC Bioinformatics. 2011 Apr 28;12:126. doi: 10.1186/1471-2105-12-126.

13.

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.

14.

Stochastic simulation GUI for biochemical networks.

Vallabhajosyula RR, Sauro HM.

Bioinformatics. 2007 Jul 15;23(14):1859-61. Epub 2007 Jun 22.

15.

DBSolve Optimum: a software package for kinetic modeling which allows dynamic visualization of simulation results.

Gizzatkulov NM, Goryanin II, Metelkin EA, Mogilevskaya EA, Peskov KV, Demin OV.

BMC Syst Biol. 2010 Aug 10;4:109. doi: 10.1186/1752-0509-4-109.

16.

Software that goes with the flow in systems biology.

Hucka M, Le Novère N.

BMC Biol. 2010 Nov 29;8:140. doi: 10.1186/1741-7007-8-140.

17.

SED-ED, a workflow editor for computational biology experiments written in SED-ML.

Adams RR.

Bioinformatics. 2012 Apr 15;28(8):1180-1. doi: 10.1093/bioinformatics/bts101. Epub 2012 Feb 25.

18.

BioBayes: a software package for Bayesian inference in systems biology.

Vyshemirsky V, Girolami M.

Bioinformatics. 2008 Sep 1;24(17):1933-4. doi: 10.1093/bioinformatics/btn338. Epub 2008 Jul 16.

19.

DOTcvpSB, a software toolbox for dynamic optimization in systems biology.

Hirmajer T, Balsa-Canto E, Banga JR.

BMC Bioinformatics. 2009 Jun 29;10:199. doi: 10.1186/1471-2105-10-199.

20.

Biochemical modeling with Systems Biology Graphical Notation.

Jansson A, Jirstrand M.

Drug Discov Today. 2010 May;15(9-10):365-70. doi: 10.1016/j.drudis.2010.02.012. Epub 2010 Mar 6. Review.

PMID:
20211756
Items per page

Supplemental Content

Write to the Help Desk