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A comprehensive map of the influenza A virus replication cycle
Yukiko Matsuoka, Hiromi Matsumae, Manami Katoh, Amie J Eisfeld, Gabriele Neumann, Takeshi Hase, Samik Ghosh, Jason E Shoemaker, Tiago JS Lopes, Tokiko Watanabe, Shinji Watanabe, Satoshi Fukuyama, Hiroaki Kitano, Yoshihiro Kawaoka BMC Systems Biology 2013, 7:97 (2 October 2013)
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Reconstruction of the experimentally supported human protein interactome: what can we learn?
Maria I Klapa, Kalliopi Tsafou, Evangelos Theodoridis, Athanasios Tsakalidis, Nicholas K Moschonas BMC Systems Biology 2013, 7:96 (2 October 2013)
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The development of a fully-integrated immune response model (FIRM) simulator of the immune response through integration of multiple subset models
Sirus Palsson, Timothy P Hickling, Erica L Bradshaw-Pierce, Michael Zager, Karin Jooss, Peter J O¿Brien, Mary E Spilker, Bernhard O Palsson, Paolo Vicini BMC Systems Biology 2013, 7:95 (28 September 2013)
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Noise propagation through extracellular signaling leads to fluctuations in gene expression
Omar P Tabbaa, German Nudelman, Stuart C Sealfon, Fernand Hayot, Ciriyam Jayaprakash BMC Systems Biology 2013, 7:94 (25 September 2013)
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JunD/AP1 regulatory network analysis during macrophage activation in a rat model of crescentic glomerulonephritis
Prashant K Srivastava, Richard P Hull, Jacques Behmoaras, Enrico Petretto, Timothy J Aitman BMC Systems Biology 2013, 7:93 (22 September 2013)
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Analysis of l-glutamic acid fermentation by using a dynamic metabolic simulation model of Escherichia coli
Yousuke Nishio, Soichi Ogishima, Masao Ichikawa, Yohei Yamada, Yoshihiro Usuda, Tadashi Masuda, Hiroshi Tanaka BMC Systems Biology 2013, 7:92 (22 September 2013)
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Identification of parameter correlations for parameter estimation in dynamic biological models
Pu Li, Quoc Dong Vu BMC Systems Biology 2013, 7:91 (22 September 2013)
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Topology of molecular interaction networks
Wynand Winterbach, Piet Van Mieghem, Marcel Reinders, Huijuan Wang, Dick de Ridder BMC Systems Biology 2013, 7:90 (16 September 2013)
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Global insights into energetic and metabolic networks in Rhodobacter sphaeroides
Saheed Imam, Daniel R Noguera, Timothy J Donohue BMC Systems Biology 2013, 7:89 (13 September 2013)
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An online model composition tool for system biology models
Sarp A Coskun, A Ercument Cicek, Nicola Lai, Ranjan K Dash, Z Meral Ozsoyoglu, Gultekin Ozsoyoglu BMC Systems Biology 2013, 7:88 (5 September 2013)
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Modularity and evolutionary constraints in a baculovirus gene regulatory network
Juliana Oliveira, Anderson de Brito, Carla Braconi, Caio de Melo Freire, Atila Iamarino, Paolo de Andrade Zanotto BMC Systems Biology 2013, 7:87 (4 September 2013)
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Identification of upstream regulators for prognostic expression signature genes in colorectal cancer
Taejeong Bae, Kyoohyoung Rho, Jin Woo Choi, Katsuhisa Horimoto, Wankyu Kim, Sunghoon Kim BMC Systems Biology 2013, 7:86 (4 September 2013)
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Systems analysis reveals a transcriptional reversal of the mesenchymal phenotype induced by SNAIL-inhibitor GN-25
Asfar S Azmi, Aliccia Bollig-Fischer, Bin Bao, Bum-Joon Park, Sun-Hye Lee, Gyu Yong-Song, Gregory Dyson, Chandan K Reddy, Fazlul H Sarkar, Ramzi M Mohammad BMC Systems Biology 2013, 7:85 (3 September 2013)
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Inferring the Effective TOR-Dependent Network: A Computational Study in Yeast
Shahin Mohammadi, Shankar Subramaniam, Ananth Grama BMC Systems Biology 2013, 7:84 (30 August 2013)
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Post-translational regulation enables robust p53 regulation
Yong-Jun Shin, Kai-Yuan Chen, Ali H Sayed, Brandon Hencey, Xiling Shen BMC Systems Biology 2013, 7:83 (30 August 2013)
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Computational estimation of tricarboxylic acid cycle fluxes using noisy NMR data from cardiac biopsies
Hannes Hettling, David J C Alders, Jaap Heringa, Thomas W Binsl, A B Groeneveld, Johannes H G M van Beek BMC Systems Biology 2013, 7:82 (21 August 2013)
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Rule–based regulatory and metabolic model for Quorum sensing in P. aeruginosa
Nadine S Schaadt, Anke Steinbach, Rolf W Hartmann, Volkhard Helms BMC Systems Biology 2013, 7:81 (21 August 2013)
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Core modular blood and brain biomarkers in social defeat mouse model for post traumatic stress disorder
Ruoting Yang, Bernie J Daigle Jr, Seid Y Muhie, Rasha Hammamieh, Marti Jett, Linda Petzold, Francis J Doyle BMC Systems Biology 2013, 7:80 (20 August 2013)
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Interspecies protein-protein interaction network construction for characterization of host-pathogen interactions: a Candida albicans-zebrafish interaction study
Yu-Chao Wang, Che Lin, Ming-Ta Chuang, Wen-Ping Hsieh, Chung-Yu Lan, Yung-Jen Chuang, Bor-Sen Chen BMC Systems Biology 2013, 7:79 (16 August 2013)
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New network topology approaches reveal differential correlation patterns in breast cancer
Michael Bockmayr, Frederick Klauschen, Balazs Györffy, Carsten Denkert, Jan Budczies BMC Systems Biology 2013, 7:78 (15 August 2013)
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Transdifferentiation of pancreatic cells by loss of contact-mediated signaling
Walter de Back, Roland Zimm, Lutz Brusch BMC Systems Biology 2013, 7:77 (13 August 2013)
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Simultaneous model discrimination and parameter estimation in dynamic models of cellular systems
Maria Rodriguez-Fernandez, Markus Rehberg, Andreas Kremling, Julio R Banga BMC Systems Biology 2013, 7:76 (12 August 2013)
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Starch biosynthesis in cassava: a genome-based pathway reconstruction and its exploitation in data integration
Treenut Saithong, Oratai Rongsirikul, Saowalak Kalapanulak, Porntip Chiewchankaset, Wanatsanan Siriwat, Supatcharee Netrphan, Malinee Suksangpanomrung, Asawin Meechai, Supapon Cheevadhanarak BMC Systems Biology 2013, 7:75 (10 August 2013)
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COBRApy: COnstraints-Based Reconstruction and Analysis for Python
Ali Ebrahim, Joshua A Lerman, Bernhard O Palsson, Daniel R Hyduke BMC Systems Biology 2013, 7:74 (8 August 2013)
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Reconstruction of large-scale regulatory networks based on perturbation graphs and transitive reduction: improved methods and their evaluation
Andrea Pinna, Sandra Heise, Robert J Flassig, Alberto Fuente, Steffen Klamt BMC Systems Biology 2013, 7:73 (8 August 2013)
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