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Editor-in-Chief
Melissa Norton, MD Biology Editor
Penelope Webb, PhD In-house Editor
Tim Sands PhD
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 BMC Systems Biology, Volume 3
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Methodology article
 
Flux-sum analysis: a metabolite-centric approach for understanding the metabolic network
Bevan Kai Sheng Chung, Dong-Yup Lee
BMC Systems Biology 2009, 3:117 (19December2009)
[Abstract] [Provisional PDF]
Research article
Human synthetic lethal inference as potential anti-cancer target gene detection
Nuria Conde-Pueyo, Andreea Munteanu, Ricard V Sole, Carlos Rodriguez-Caso
BMC Systems Biology 2009, 3:116 (16December2009)
[Abstract] [Provisional PDF] [PubMed] [Related articles]
Research article
Detecting coordinated regulation of multi-protein complexes using logic analysis of gene expression
Einat Sprinzak, Shawn J. Cokus, Todd O. Yeates, David Eisenberg, Matteo Pellegrini
BMC Systems Biology 2009, 3:115 (14December2009)
[Abstract] [Provisional PDF] [PubMed] [Related articles]
Research article
In silico approaches to study mass and energy flows in microbial consortia: a syntrophic case study
Reed Taffs, John E Aston, Kristen Brileya, Zackary Jay, Christian G Klatt, Shawn McGlynn, Natasha Mallette, Scott Montross, Robin Gerlach, William P Inskeep, David M Ward, Ross P Carlson
BMC Systems Biology 2009, 3:114 (10December2009)
[Abstract] [Provisional PDF] [PubMed] [Related articles]
Research article
Impact of environmental inputs on reverse-engineering approach to network structures
Jianhua Wu, James L Sinfield, Vicky Buchanan-Wollaston, Jianfeng Feng
BMC Systems Biology 2009, 3:113 (4December2009)
[Abstract] [Provisional PDF] [PubMed] [Related articles]
Methodology article
Spectral affinity in protein networks
Konstantin Voevodski, Shang-Hua Teng, Yu Xia
BMC Systems Biology 2009, 3:112 (29November2009)
[Abstract] [Provisional PDF] [PubMed] [Related articles]
Research article
An evaluation of minimal cellular functions to sustain a bacterial cell
Yusuke Azuma, Motonori Ota
BMC Systems Biology 2009, 3:111 (28November2009)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Inferring a transcriptional regulatory network of the cytokinesis-related genes by network component analysis
Shun-Fu Chen, Yue-Li Juang, Wei-Kang Chou, Jin-Mei Lai, Chi-Ying F Huang, Cheng-Yan Kao, Feng-Sheng Wang
BMC Systems Biology 2009, 3:110 (27November2009)
[Abstract] [Provisional PDF] [PubMed] [Related articles]
Software
DASMiner: discovering and integrating data from DAS sources
Diogo FT Veiga, Helena F Deus, Caner Akdemir, Ana Tereza R Vasconcelos, Jonas S Almeida
BMC Systems Biology 2009, 3:109 (17November2009)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Network analysis of the transcriptional pattern of young and old cells of Escherichia coli during lag phase
Carmen Pin, Matthew D Rolfe, Marina Mu oz-Cuevas, Jay CD Hinton, Michael W Peck, Nicholas J Walton, J zsef Baranyi
BMC Systems Biology 2009, 3:108 (16November2009)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Long-term prediction of fish growth under varying ambient temperature using a multiscale dynamic model
Nadav S Bar, Nicole Radde
BMC Systems Biology 2009, 3:107 (10November2009)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Methodology article
Using the ratio of means as the effect size measure in combining results of microarray experiments
Pingzhao Hu, Celia MT Greenwood, Joseph Beyene
BMC Systems Biology 2009, 3:106 (5November2009)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
A model invalidation-based approach for elucidating biological signalling pathways, applied to the chemotaxis pathway in R. sphaeroides
Mark AJ Roberts, Elias August, Abdullah Hamadeh, Philip K Maini, Patrick E McSharry, Judith P Armitage, Antonis Papachristodoulou
BMC Systems Biology 2009, 3:105 (31October2009)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
13C-metabolic flux ratio and novel carbon path analyses confirmed that Trichoderma reesei uses primarily the respirative pathway also on the preferred carbon source glucose
Paula Jouhten, Esa Pitk nen, Tiina Pakula, Markku Saloheimo, Merja Penttil, Hannu Maaheimo
BMC Systems Biology 2009, 3:104 (29October2009)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Methodology article
Inferring branching pathways in genome-scale metabolic networks
Esa Pitknen, Paula Jouhten, Juho Rousu
BMC Systems Biology 2009, 3:103 (29October2009)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
How to identify essential genes from molecular networks?
Gabriel del Rio, Dirk Kosch tzki, Gerardo Coello
BMC Systems Biology 2009, 3:102 (13October2009)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Investigating the robustness of the classical enzyme kinetic equations in small intracellular compartments
Ramon Grima
BMC Systems Biology 2009, 3:101 (8October2009)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Computational modelling of cancerous mutations in the EGFR/ERK signalling pathway
Richard J Orton, Michiel E Adriaens, Amelie Gormand, Oliver E Sturm, Walter Kolch, David R Gilbert
BMC Systems Biology 2009, 3:100 (5October2009)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Software
An editor for pathway drawing and data visualization in the Biopathways Workbench
Robert W Byrnes, Dawn Cotter, Andreia Maer, Joshua Li, David Nadeau, Shankar Subramaniam
BMC Systems Biology 2009, 3:99 (2October2009)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Methodology article
Transforming Boolean models to continuous models: methodology and application to T-cell receptor signaling
Dominik M Wittmann, Jan Krumsiek, Julio Saez-Rodriguez, Douglas A Lauffenburger, Steffen Klamt, Fabian J Theis
BMC Systems Biology 2009, 3:98 (28September2009)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
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