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Editor-in-Chief
Melissa Norton, MD Biology Editor
Penelope Webb, PhD In-house Editor
Erik Alexandersson
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 BMC Systems Biology, Volume 2
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Research article
 
Iterative reconstruction of a global metabolic model of Acinetobacter baylyi ADP1 using high-throughput growth phenotype and gene essentiality data
Maxime Durot, Francois Le Fevre, Veronique de Berardinis, Annett Kreimeyer, David Vallenet, Cyril Combe, Serge Smidtas, Marcel Salanoubat, Jean Weissenbach, Vincent Schachter
BMC Systems Biology 2008, 2:85 (7October2008)
[Abstract] [Provisional PDF]
Methodology article
Network evaluation from the consistency of the graph structure with the measured data
Shigeru Saito, Sachiyo Aburatani, Katsuhisa Horimoto
BMC Systems Biology 2008, 2:84 (1October2008)
[Abstract] [Provisional PDF] [PubMed] [Related articles]
Research article
Parameter estimation and determinability analysis applied to Drosophila gap gene circuits
Maksat Ashyraliyev, Johannes Jaeger, Joke G Blom
BMC Systems Biology 2008, 2:83 (25September2008)
[Abstract] [Provisional PDF] [PubMed] [Related articles]
Research article
Origin of structural difference in metabolic networks with respect to temperature
Kazuhiro Takemoto, Tatsuya Akutsu
BMC Systems Biology 2008, 2:82 (22September2008)
[Abstract] [Provisional PDF] [PubMed] [Related articles]
Research article
Employing conservation of co-expression to improve functional inference
Carsten O Daub, Erik LL Sonnhammer
BMC Systems Biology 2008, 2:81 (22September2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
The use of Gene Ontology terms for predicting highly-connected 'hub' nodes in protein-protein interaction networks
Michael Hsing, Kendall Grant Byler, Artem Cherkasov
BMC Systems Biology 2008, 2:80 (16September2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
A genome-scale metabolic reconstruction of Pseudomonas putida KT2440: iJN746 as a cell factory.
Juan Nogales, Bernhard O. Palsson, Ines Thiele
BMC Systems Biology 2008, 2:79 (16September2008)
[Abstract] [Provisional PDF] [PubMed] [Related articles]
Methodology article
Exact model reduction of combinatorial reaction networks
Holger Conzelmann, Dirk Fey, Ernst D Gilles
BMC Systems Biology 2008, 2:78 (28August2008)
[Abstract] [Provisional PDF] [PubMed] [Related articles]
Research article
A compartment model of VEGF distribution in blood, healthy and diseased tissues
Marianne O Stefanini, Florence TH Wu, Feilim Mac Gabhann, Aleksander S Popel
BMC Systems Biology 2008, 2:77 (19August2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Software
Rapidly exploring structural and dynamic properties of signaling networks using PathwayOracle
Derek Ruths, Luay Nakhleh, Prahlad T Ram
BMC Systems Biology 2008, 2:76 (19August2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Explaining oscillations and variability in the p53-Mdm2 system
Carole J Proctor, Douglas A Gray
BMC Systems Biology 2008, 2:75 (18August2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Review
A review of imaging techniques for systems biology
Armen R Kherlopian, Ting Song, Qi Duan, Mathew A Neimark, Ming J Po, John K Gohagan, Andrew F Laine
BMC Systems Biology 2008, 2:74 (12August2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
On the origin of distribution patterns of motifs in biological networks
Arun S Konagurthu, Arthur M Lesk
BMC Systems Biology 2008, 2:73 (12August2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Constructing disease-specific gene networks using pair-wise relevance metric: Application to colon cancer identifies interleukin 8, desmin and enolase 1 as the central elements
Wei Jiang, Xia Li, Shaoqi Rao, Lihong Wang, Lei Du, Chuanxing Li, Chao Wu, Hongzhi Wang, Yadong Wang, Baofeng Yang
BMC Systems Biology 2008, 2:72 (10August2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
The genome-scale metabolic model iIN800 of Saccharomyces cerevisiae and its validation: a scaffold to query lipid metabolism
Intawat Nookaew, Michael C Jewett, Asawin Meechai, Chinae Thammarongtham, Kobkul Laoteng, Supapon Cheevadhanarak, Jens Nielsen, Sakarindr Bhumiratana
BMC Systems Biology 2008, 2:71 (7August2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
An enzyme-centric approach for modelling non-linear biological complexity
Chin-Rang Yang
BMC Systems Biology 2008, 2:70 (1August2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Research article
Structural similarity of genetically interacting proteins
Oranit Dror, Dina Schneidman-Duhovny, Alexandra Shulman-Peleg, Ruth Nussinov, Haim J Wolfson, Roded Sharan
BMC Systems Biology 2008, 2:69 (31July2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Methodology article
Modeling cellular deformations using the level set formalism
Liu Yang, Janet C Effler, Brett L Kutscher, Sarah E Sullivan, Douglas N Robinson, Pablo A Iglesias
BMC Systems Biology 2008, 2:68 (24July2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Methodology article
Machine learning based analyses on metabolic networks supports high-throughput knockout screens
Kitiporn Plaimas, Jan-Phillip Mallm, Marcus Oswald, Fabian Svara, Victor Sourjik, Roland Eils, Rainer K nig
BMC Systems Biology 2008, 2:67 (24July2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
Software
GridCell: a stochastic particle-based biological system simulator
Laurier Boulianne, Sevin Al Assaad, Michel Dumontier, Warren J Gross
BMC Systems Biology 2008, 2:66 (23July2008)
[Abstract] [Full text] [PDF] [PubMed] [Related articles]
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