Works matching IS 17520509 AND DT 2015 AND VI 9

Results: 149

A synthetic mammalian network to compute population borders based on engineered reciprocal cell-cell communication.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/s12918-015-0252-1

By:

Kolar, Katja;
Wischhusen, Hanna M.;
Müller, Konrad;
Karlsson, Maria;
Weber, Wilfried;
Zurbriggen, Matias D.

Publication type:

Article

Scope and limitations of yeast as a model organism for studying human tissue-specific pathways.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/s12918-015-0253-0

By:

Mohammadi, Shahin;
Saberidokht, Baharak;
Subramaniam, Shankar;
Grama, Ananth

Publication type:

Article

JigCell Run Manager (JC-RM): a tool for managing large sets of biochemical model parametrizations.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/s12918-015-0237-0

By:

Palmisano, Alida;
Hoops, Stefan;
Watson, Layne T.;
Jones Jr, Thomas C.;
Tyson, John J.;
Shaffer, Clifford A.

Publication type:

Article

PROXIMAL: a method for Prediction of Xenobiotic Metabolism.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/s12918-015-0241-4

By:

Yousofshahi, Mona;
Manteiga, Sara;
Charmian Wu;
Kyongbum Lee;
Hassoun, Soha

Publication type:

Article

FlexFlux: combining metabolic flux and regulatory network analyses.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/s12918-015-0238-z

By:

Marmiesse, Lucas;
Peyraud, Rémi;
Cottret, Ludovic

Publication type:

Article

A simple method for identifying parameter correlations in partially observed linear dynamic models.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/s12918-015-0234-3

By:

Pu Li;
Quoc Dong Vu

Publication type:

Article

A cell size- and cell cycle-aware stochastic model for predicting time-dynamic gene network activity in individual cells.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/s12918-015-0240-5

By:

Ruijie Song;
Weilin Peng;
Ping Liu;
Acar, Murat

Publication type:

Article

Cellular automaton-based model for radiation-induced bystander effects.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/s12918-015-0235-2

By:

Hattori, Yuya;
Yokoya, Akinari;
Watanabe, Ritsuko

Publication type:

Article

Tracing regulatory routes in metabolism using generalised supply-demand analysis.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/s12918-015-0236-1

By:

Christensen, Carl D.;
Hofmeyr, Jan-Hendrik S.;
Rohwer, Johann M.

Publication type:

Article

A model for gene deregulation detection using expression data.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/1752-0509-9-S6-S6

By:

Picchetti, Thomas;
Chiquet, Julien;
Elati, Mohamed;
Neuvial, Pierre;
Nicolle, Rémy;
Birmelé, Etienne

Publication type:

Article

Constructing a molecular interaction network for thyroid cancer via large-scale text mining of gene and pathway events.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/1752-0509-9-S6-S5

By:

Chengkun Wu;
Schwartz, Jean-Marc;
Brabant, Georg;
Shao-Liang Peng;
Nenadic, Goran

Publication type:

Article

Identification of network-based biomarkers of cardioembolic stroke using a systems biology approach with time series data.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/1752-0509-9-S6-S4

By:

Yung-Hao Wong;
Chia-Chou Wu;
Hsien-Yong Lai;
Bo-Ren Jheng;
Hsing-Yu Weng;
Tzu-Hao Chang;
Bor-Sen Chen

Publication type:

Article

Disentangling the multigenic and pleiotropic nature of molecular function.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/1752-0509-9-S6-S3

By:

Stoney, Ruth A.;
Ames, Ryan M.;
Nenadic, Goran;
Robertson, David L.;
Schwartz, Jean-Marc

Publication type:

Article

Functional redundancy of transcription factors explains why most binding targets of a transcription factor are not affected when the transcription factor is knocked out.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/1752-0509-9-S6-S2

By:

Wei-Sheng Wu;
Fu-Jou Lai

Publication type:

Article

YAGM: a web tool for mining associated genes in yeast based on diverse biological associations.

Published in:

2015

By:

Wei-Sheng Wu;
Chung-Ching Wang;
Meng-Jhun Jhou;
Yu-Cheng Wang

Publication type:

Product Review

Resource constrained flux balance analysis predicts selective pressure on the global structure of metabolic networks.

Published in:

BMC Systems Biology, 2015, v. 9, p. 88, doi. 10.1186/s12918-015-0232-5

By:

Abedpour, Nima;
Kollmann, Markus

Publication type:

Article

The relationship between stochastic and deterministic quasi-steady state approximations.

Published in:

BMC Systems Biology, 2015, v. 9, p. 87, doi. 10.1186/s12918-015-0218-3

By:

Jae Kyoung Kim;
Josić, Krešimir;
Bennett, Matthew R.

Publication type:

Article

Tip cell overtaking occurs as a side effect of sprouting in computational models of angiogenesis.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/s12918-015-0230-7

By:

Boas, Sonja E. M.;
Merks, Roeland M. H.

Publication type:

Article

A global sensitivity analysis approach for morphogenesis models.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/s12918-015-0222-7

By:

Boas, Sonja E. M.;
Navarro Jimenez, Maria I.;
Merks, Roeland M. H.;
Blom, Joke G.

Publication type:

Article

Reconstruction of gene networks using prior knowledge.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/s12918-015-0233-4

By:

Ghanbari, Mahsa;
Lasserre, Julia;
Vingron, Martin

Publication type:

Article

Pathobiochemical signatures of cholestatic liver disease in bile duct ligated mice.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/s12918-015-0229-0

By:

Abshagen, Kerstin;
König, Matthias;
Hoppe, Andreas;
Müller, Isabell;
Ebert, Matthias;
Weng, Honglei;
Holzhütter, Herrmann-Georg;
Zanger, M. Ulrich;
Bode, Johannes;
Vollmar, Brigitte;
Thomas, Maria;
Dooley, Steven

Publication type:

Article

Differential variability and correlation of gene expression identifies key genes involved in neuronal differentiation.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/s12918-015-0231-6

By:

Tatsuya Ando;
Ryuji Kato;
Hiroyuki Honda

Publication type:

Article

Analyzing Th17 cell differentiation dynamics using a novel integrative modeling framework for time-course RNA sequencing data.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/s12918-015-0223-6

By:

Intosalmi, Jukka;
Ahlfors, Helena;
Rautio, Sini;
Mannerstöm, Henrik;
Chen, Zhi Jane;
Lahesmaa, Riitta;
Stockinger, Brigitta;
Lähdesmäki, Harri

Publication type:

Article

Integrating transcriptional and protein interaction networks to prioritize condition-specific master regulators.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/s12918-015-0228-1

By:

Padi, Megha;
Quackenbush, John

Publication type:

Article

Mining for novel candidate clock genes in the circadian regulatory network.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/s12918-015-0227-2

By:

Bhargava, Anuprabha;
Herzel, Hanspeter;
Ananthasubramaniam, Bharath

Publication type:

Article

Deciphering the signaling mechanisms of the plant cell wall degradation machinery in Aspergillus oryzae.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/s12918-015-0224-5

By:

Gupta Udatha, D. B. R. K.;
Topakas, Evangelos;
Salazar, Margarita;
Olsson, Lisbeth;
Andersen, Mikael R.;
Panagiotou, Gianni

Publication type:

Article

In silico evaluation and exploration of antibiotic tuberculosis treatment regimens.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/s12918-015-0221-8

By:

Pienaar, Elsje;
Dartois, Véronique;
Linderman, Jennifer J.;
Kirschner, Denise E.

Publication type:

Article

Bayesian modeling suggests that IL-12 (p40), IL-13 and MCP-1 drive murine cytokine networks in vivo.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/s12918-015-0226-3

By:

Field, Sarah L.;
Dasgupta, Tathagata;
Cummings, Michele;
Savage, Richard S.;
Adebayo, Julius;
McSara, Hema;
Gunawardena, Jeremy;
Orsi, Nicolas M.

Publication type:

Article

A multi-omic analysis of human naïve CD4+ T cells.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/s12918-015-0225-4

By:

Mitchell, Christopher J.;
Getnet, Derese;
Min-Sik Kim;
Manda, Srikanth S.;
Kumar, Praveen;
Tai-Chung Huang;
Pinto, Sneha M.;
Nirujogi, Raja Sekhar;
Mio Iwasaki;
Shaw, Patrick G.;
Xinyan Wu;
Jun Zhong;
Chaerkady, Raghothama;
Marimuthu, Arivusudar;
Muthusamy, Babylakshmi;
Sahasrabuddhe, Nandini A.;
Raju, Rajesh;
Bowman, Caitlyn;
Danilova, Ludmila;
Cutler, Jevon

Publication type:

Article

Robust and efficient parameter estimation in dynamic models of biological systems.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/s12918-015-0219-2

By:

Gábor, Attila;
Banga, Julio R.

Publication type:

Article

Flux-sum analysis identifies metabolite targets for strain improvement.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/s12918-015-0198-3

By:

Meiyappan Lakshmanan;
Tae Yong Kim;
Chung, Bevan K. S.;
Sang Yup Lee;
Dong-Yup Lee

Publication type:

Article

Optimization of lipid production with a genome-scale model of Yarrowia lipolytica.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/s12918-015-0217-4

By:

Kavšček, Martin;
Bhutada, Govindprasad;
Madl, Tobias;
Natter, Klaus

Publication type:

Article

Systems analysis of non-parenchymal cell modulation of liver repair across multiple regeneration modes.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/s12918-015-0220-9

By:

Cook, Daniel;
Ogunnaike, Babatunde A.;
Vadigepalli, Rajanikanth

Publication type:

Article

Conditional robustness analysis for fragility discovery and target identification in biochemical networks and in cancer systems biology.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/s12918-015-0216-5

By:

Bianconi, Fortunato;
Baldelli, Elisa;
Luovini, Vienna;
Petricoin, Emanuel F.;
Crinò, Lucio;
Valigi, Paolo

Publication type:

Article

Mathematical analysis of the regulation of competing methyltransferases.

Published in:

BMC Systems Biology, 2015, v. 9, p. 1, doi. 10.1186/s12918-015-0215-6

By:

Reed, Michael C.;
Gamble, Mary V.;
Hall, Megan N.;
Nijhout, H. Frederik

Publication type:

Article

SBMLsqueezer 2: context-sensitive creation of kinetic equations in biochemical networks.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0212-9

By:

Dräger, Andreas;
Zielinski, Daniel C.;
Keller, Roland;
Rall, Matthias;
Eichner, Johannes;
Palsson, Bernhard O.;
Zell, Andreas

Publication type:

Article

Solution of the chemical master equation by radial basis functions approximation with interface tracking.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0210-y

By:

Kryven, Ivan;
Röblitz, Susanna;
Schütte, Christof

Publication type:

Article

Towards in vivo estimation of reaction kinetics using high-throughput metabolomics data: a maximum likelihood approach.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0214-7

By:

Weiruo Zhang;
Kolte, Ritesh;
Dill, David L.

Publication type:

Article

Clustering reveals limits of parameter identifiability in multi-parameter models of biochemical dynamics.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0205-8

By:

Nienałtowski, Karol;
Włodarczyk, Michał;
Lipniacki, Tomasz;
Komorowski, Michał

Publication type:

Article

Impact of kinetic isotope effects in isotopic studies of metabolic systems.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0213-8

By:

Millard, Pierre;
Portais, Jean-Charles;
Mendes, Pedro

Publication type:

Article

Analysis of a spatial gene expression database for sea anemone Nematostella vectensis during early development.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0209-4

By:

Botman, Daniel;
Jansson, Fredrik;
Röttinger, Eric;
Martindale, Mark Q.;
De Jong, Johann;
Kaandorp, Jaap A.

Publication type:

Article

Integrating genetics and epigenetics in breast cancer: biological insights, experimental, computational methods and therapeutic potential.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0211-x

By:

Cava, Claudia;
Bertoli, Gloria;
Castiglioni, Isabella

Publication type:

Article

Inference of spatiotemporal effects on cellular state transitions from time-lapse microscopy.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0208-5

By:

Strasser, Michael K.;
Feigelman, Justin;
Theis, Fabian J.;
Marr, Carsten

Publication type:

Article

Incorporating prior knowledge improves detection of differences in bacterial growth rate.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0204-9

By:

Rickett, Lydia M.;
Pullen, Nick;
Hartley, Matthew;
Zipfel, Cyril;
Kamoun, Sophien;
Baranyi, József;
Morris, Richard J.

Publication type:

Article

Exploring causal networks underlying fat deposition and muscularity in pigs through the integration of phenotypic, genotypic and transcriptomic data.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0207-6

By:

Peñagaricano, Francisco;
Valente, Bruno D.;
Steibel, Juan P.;
Bates, Ronald O.;
Ernst, Catherine W.;
Khatib, Hasan;
Rosa, Guilherme J. M.

Publication type:

Article

Metabolic modeling predicts metabolite changes in Mycobacterium tuberculosis.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0206-7

By:

Garay, Christopher D.;
Dreyfuss, Jonathan M.;
Galagan, James E.

Publication type:

Article

Systematic synergy modeling: understanding drug synergy from a systems biology perspective.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0202-y

By:

Di Chen;
Xi Liu;
Yiping Yang;
Hongjun Yang;
Peng Lu

Publication type:

Article

Bacterial social interactions drive the emergence of differential spatial colony structures.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0188-5

By:

Blanchard, Andrew E.;
Ting Lu

Publication type:

Article

Dysregulation of the vascular endothelial growth factor and semaphorin ligand-receptor families in prostate cancer metastasis.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0201-z

By:

Bender, R. Joseph;
Gabhann, Feilim Mac

Publication type:

Article

Inferring microbial interaction network from microbiome data using RMN algorithm.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0199-2

By:

Kun-Nan Tsai;
Shu-Hsi Lin;
Wei-Chung Liu;
Daryi Wang

Publication type:

Article