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Editor-in-Chief Melissa Norton, MD
Biology Editor Penelope Webb, PhD
In-house Editor Erik Alexandersson
Welcome to BMC Systems Biology published by BioMed Central
BMC Systems Biology is an open access journal publishing original peer-reviewed research articles in systems-level analysis of biological events, whether experimental or theoretical, at the level of molecules, cells or organisms. The journal especially welcomes quantitative analyses and those that integrate different levels of information to understand how biological systems function or can be perturbed, as well as articles involving the modeling or engineering of biological systems, and synthetic biology.
BMC Systems Biology (ISSN 1752-0509) is indexed/tracked/covered by PubMed, MEDLINE, BIOSIS, CAS, Scopus, EMBASE, Zoological Record, Thomson Scientific (ISI) and Google Scholar.
BMC Systems Biology 2008, 2 :20
A new model of the Bacillus subtilis central metabolism identifies a set of locally regulated modules coordinated by global regulators and suggests that metabolite pools play an important role in regulation.
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Methodology article
A Dominated Coupling From The Past algorithm for the stochastic
simulation of networks of biochemical reactions Martin Hemberg, Mauricio Barahona BMC Systems Biology 2008, 2 :42 (8 [Abstract ] [Provisional PDF ]
Research article
Extraction of elementary rate constants from global network analysis of E. coli central metabolism Jiao Zhao, Douglas Ridgway, Gordon Broderick, Andriy Kovalenko, Michael Ellison BMC Systems Biology 2008, 2 :41 (7 [Abstract ] [Provisional PDF ]
Methodology article
Exploiting the pathway structure of metabolism to reveal high-order epistasis Marcin Imielinski, Calin Belta BMC Systems Biology 2008, 2 :40 (30 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Software
SBMLsqueezer: a CellDesigner plug-in to generate kinetic
rate equations for biochemical networks Andreas Draeger, Nadine Hassis, Jochen Supper, Adrian Schroeder, Andreas Zell BMC Systems Biology 2008, 2 :39 (30 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Research article
A systems biology approach to analyse amplification in the JAK2-STAT5 signalling pathway Julio Vera, Julie Bachmann, Andrea C. Pfeifer, Verena Becker, Jose A. Hormiga, Nestor V. Torres Darias, Jens Timmer, Ursula Klingmuller, Olaf Wolkenhauer BMC Systems Biology 2008, 2 :38 (25 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Research article
Phenotype prediction in regulated metabolic networks Christoph Kaleta, Florian Centler, Pietro Speroni di Fenizio, Peter Dittrich BMC Systems Biology 2008, 2 :37 (25 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ] [Cited on BioMed Central ]
Research article
A logic-based diagram of signalling pathways central to macrophage activation Sobia Raza, Kevin A Robertson, Paul A Lacaze, David Page, Anton J Enright, Peter Ghazal, Tom C Freeman BMC Systems Biology 2008, 2 :36 (23 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Research article
Parameter optimization in S-system models Marco Vilela, I-Chun Chou, Susana Vinga, Ana Tereza R Vasconcelos, Eberhard O Voit, Jonas S Almeida BMC Systems Biology 2008, 2 :35 (16 [Abstract ] [Full text ] [PDF ] [PubMed ] [Related articles ]
Methodology article
Using genetic markers to orient the edges in quantitative trait networks: the NEO software Jason E Aten, Tova F Fuller, Aldons J Lusis, Steve Horvath BMC Systems Biology 2008, 2 :34 (15 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Methodology article
Extracting expression modules from perturbational gene expression compendia Steven Maere, Patrick Van Dijck, Martin Kuiper BMC Systems Biology 2008, 2 :33 (10 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Methodology article
A tree-based conservation scoring method for short linear motifs in multiple alignments of protein sequences Claudia Chica, Alberto Labarga, Cathryn M Gould, Rodrigo Lopez, Toby J Gibson BMC Bioinformatics 2008, 9 :229 (6 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Methodology article
The pairwise disconnectivity index as a new metric for the topological analysis of regulatory networks Anatolij P. Potapov, Bjorn Goemann, Edgar Wingender BMC Bioinformatics 2008, 9 :227 (2 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Research article
A flax fibre proteome: identification of proteins enriched in bast fibres Naomi SC Hotte, Michael K Deyholos BMC Plant Biology 2008, 8 :52 (30 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Software review
The Multiscale Systems Immunology project: software for cell-based immunological simulation Faheem Mitha, Timothy A. Lucas, Feng Feng, Thomas B. Kepler, Cliburn Chan Source Code for Biology and Medicine 2008, 3 :6 (28 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Research article
M-BISON: microarray-based integration of data sources using networks Bernie J Daigle Jr, Russ B Altman BMC Bioinformatics 2008, 9 :214 (25 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Letters to the Editor
Synthetic biology: enormous possibility, exaggerated perils Zachary N Russ Journal of Biological Engineering 2008, 2 :7 (25 [Abstract ] [Full Text ] [PDF ] [PubMed ] [Related articles ]
Research article
Cell cycle correlated genes dictate the prognostic power of breast cancer gene lists
Jonathan D Mosley, Ruth A Keri BMC Medical Genomics 2008, 1 :11 (25 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Research article
Extraction of semantic biomedical relations from text using conditional random fields Markus Bundschus, Mathaeus Dejori, Martin Stetter, Volker Tresp, Hans-Peter Kriegel BMC Bioinformatics 2008, 9 :207 (23 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
Software
Linking Cytoscape and the corynebacterial reference database CoryneRegNet Jan Baumbach, Leonard Apeltsin BMC Genomics 2008, 9 :184 (21 [Abstract ] [Full text ] [PDF ] [PubMed ] [Related articles ]
Research article
Network motif-based identification of transcription factor-target gene relationships by integrating multi-source biological data Yuji Zhang, Jianhua Xuan, Benildo G de los Reyes, Robert Clarke, Habtom W Ressom BMC Bioinformatics 2008, 9 :203 (21 [Abstract ] [Provisional PDF ] [PubMed ] [Related articles ]
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