Works matching IS 17520509 AND DT 2012 AND VI 6 AND IP 1

Results: 155

Predicting and characterizing selective multiple drug treatments for metabolic diseases and cancer.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 1, doi. 10.1186/1752-0509-6-115

By:

Facchetti, Giuseppe;
Zampieri, Mattia;
Altafini, Claudio

Publication type:

Article

TIGRESS: Trustful Inference of Gene REgulation using Stability Selection.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 1, doi. 10.1186/1752-0509-6-145

By:

Haury, Anne-Claire;
Mordelet, Fantine;
Vera-Licona, Paola;
Vert, Jean-Philippe

Publication type:

Article

A multiscale approximation in a heat shock response model of E. coli.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 1, doi. 10.1186/1752-0509-6-143

By:

Kang, Hye-Won

Publication type:

Article

VANTED v2: a framework for systems biology applications.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 1, doi. 10.1186/1752-0509-6-139

By:

Rohn, Hendrik;
Junker, Astrid;
Hartmann, Anja;
Grafahrend-Belau, Eva;
Treutler, Hendrik;
Klapperstück, Matthias;
Czauderna, Tobias;
Klukas, Christian;
Schreiber, Falk

Publication type:

Article

CellNOptR: a flexible toolkit to train protein signaling networks to data using multiple logic formalisms.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 1, doi. 10.1186/1752-0509-6-133

By:

Terfve, Camille;
Cokelaer, Thomas;
Henriques, David;
MacNamara, Aidan;
Goncalves, Emanuel;
Morris, Melody K.;
van Iersel, Martijn;
Lauffenburger, Douglas A.;
Saez-Rodriguez, Julio

Publication type:

Article

Gene regulatory network analysis supports inflammation as a key neurodegeneration process in prion disease.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 1, doi. 10.1186/1752-0509-6-132

By:

Crespo, Isaac;
Roomp, Kirsten;
Jurkowski, Wiktor;
Kitano, Hiroaki;
del Sol, Antonio

Publication type:

Article

Reconstruction of genome-scale metabolic models for 126 human tissues using mCADRE.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 1, doi. 10.1186/1752-0509-6-153

By:

Yuliang Wang;
Eddy, James A.;
Price, Nathan D.

Publication type:

Article

Genome-level transcription data of Yersinia pestis analyzed with a New metabolic constraint-based approach.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 1, doi. 10.1186/1752-0509-6-150

By:

Navid, Ali;
Almaas, Eivind

Publication type:

Article

Modeling and analysis of flux distributions in the two branches of the phosphotransferase system in Pseudomonas putida.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 1, doi. 10.1186/1752-0509-6-149

By:

Kremling, Andreas;
Pflüger-Grau, Katharina;
Chavarría, Max;
Puchalka, Jacek;
dos Santos, Vitor Martins;
de Lorenzo, Víctor

Publication type:

Article

Integration of time-resolved transcriptomics data with flux-based methods reveals stress-induced metabolic adaptation in Escherichia coli.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 1, doi. 10.1186/1752-0509-6-148

By:

Töpfer, Nadine;
Jozefczuk, Szymon;
Nikoloski, Zoran

Publication type:

Article

The extended TILAR approach: a novel tool for dynamic modeling of the transcription factor network regulating the adaption to in vitro cultivation of murine hepatocytes.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 1, doi. 10.1186/1752-0509-6-147

By:

Vlaic, Sebastian;
Schmidt-Heck, Wolfgang;
Matz-Soja, Madlen;
Marbach, Eugenia;
Linde, Jörg;
Meyer-Baese, Anke;
Zellmer, Sebastian;
Guthke, Reinhard;
Gebhardt, Rolf

Publication type:

Article

Compound stress response in stomatal closure: a mathematical model of ABA and ethylene interaction in guard cells.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 1, doi. 10.1186/1752-0509-6-146

By:

Beguerisse-Díaz, Mariano;
Hernández-Gómez, Mercedes C;
Lizzul, Alessandro M;
Barahona, Mauricio;
Desikan, Radhika

Publication type:

Article

GraphAlignment: Bayesian pairwise alignment of biological networks.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 1, doi. 10.1186/1752-0509-6-144

By:

Kolář, Michal;
Meier, Jörn;
Mustonen, Ville;
Lässig, Michael;
Berg, Johannes

Publication type:

Article

Incremental parameter estimation of kinetic metabolic network models.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 1, doi. 10.1186/1752-0509-6-142

By:

Jia, Gengjie;
Stephanopoulos, Gregory;
Gunawan, Rudiyanto

Publication type:

Article

A model of estrogen-related gene expression reveals non-linear effects in transcriptional response to tamoxifen.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 1, doi. 10.1186/1752-0509-6-138

By:

Lebedeva, Galina;
Yamaguchi, Azusa;
Langdon, Simon P.;
Macleod, Kenneth;
Harrison, David J.

Publication type:

Article

Functional clustering of time series gene expression data by Granger causality.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 1, doi. 10.1186/1752-0509-6-137

By:

Fujita, André;
Severino, Patricia;
Kojima, Kaname;
Sato, João Ricardo;
Patriota, Alexandre Galvão;
Miyano, Satoru

Publication type:

Article

A whole-body mathematical model of cholesterol metabolism and its age-associated dysregulation.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 1, doi. 10.1186/1752-0509-6-130

By:

Mc Auley, Mark T.;
Wilkinson, Darren J.;
Jones, Janette J. L.;
Kirkwood, Thomas B. L.

Publication type:

Article

A checkpoints capturing timing-robust Boolean model of the budding yeast cell cycle regulatory network.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 1, doi. 10.1186/1752-0509-6-129

By:

Changki Hong;
Minho Lee;
Dongsup Kim;
Dongsan Kim;
Kwang-Hyun Cho;
Insik Shin

Publication type:

Article

A simple knowledge-based mining method for exploring hidden key molecules in a human biomolecular network.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 1, doi. 10.1186/1752-0509-6-124

By:

Tsuji, Shingo;
Ihara, Sigeo;
Aburatani, Hiroyuki

Publication type:

Article

System size reduction in stochastic simulations of the facilitated diffusion mechanism.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 1, doi. 10.1186/1752-0509-6-121

By:

Zabet, Nicolae Radu

Publication type:

Article

CardioNet: A human metabolic network suited for the study of cardiomyocyte metabolism.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 1, doi. 10.1186/1752-0509-6-114

By:

Karlstädt, Anja;
Fliegner, Daniela;
Kararigas, Georgios;
Ruderisch, Hugo Sanchez;
Regitz-Zagrosek, Vera;
Holzhütter, Hermann-Georg

Publication type:

Article

A network perspective on metabolic inconsistency.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 1, doi. 10.1186/1752-0509-6-41

By:

Sonnenschein, Nikolaus;
Golib Dzib, José Felipe;
Lesne, Annick;
Eilebrecht, Sebastian;
Boulkroun, Sheerazed;
Zennaro, Maria-Christina;
Benecke, Arndt;
Hütt, Marc-Thorsten

Publication type:

Article

Metabolic Flux-Based Modularity using Shortest Retroactive distances.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 155, doi. 10.1186/1752-0509-6-155

By:

Sridharan, Gautham Vivek;
Yi, Michael;
Soha Hassoun;
Kyongbum Lee

Publication type:

Article

Analysis of alternative signaling pathways of endoderm induction of human embryonic stem cells identifies context specific differences.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 154, doi. 10.1186/1752-0509-6-154

By:

Mathew, Shibin;
Jaramillo, Maria;
Xinan Zhang;
Li Ang Zhang;
Soto-Guti‚rrez, Alejandro;
Banerjee, Ipsita

Publication type:

Article

Clarifying off-target effects for torcetrapib using network pharmacology and reverse docking approach.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 152, doi. 10.1186/1752-0509-6-152

By:

Shengjun Fan;
Qiang Geng;
Zhenyu Pan;
Xin Li;
Lu Tie;
Yan Pan;
Xuejun Li

Publication type:

Article

Similar temperature dependencies of glycolytic enzymes: an evolutionary adaptation to temperature dynamics?

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 151, doi. 10.1186/1752-0509-6-151

By:

Cruz, Ana Luisa B.;
Hebly, Marit;
Giang-Huong Duong;
Wahl, Sebastian A.;
Pronk, Jack T.;
Heijnen, Joseph J.;
Daran-Lapujade, Pascale;
van Gulik, Walter M.

Publication type:

Article

Regulation of leukotriene and 5oxoETE synthesis and the effect of 5-lipoxygenase inhibitors: a mathematical modeling approach.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 141, doi. 10.1186/1752-0509-6-141

By:

Karelina, Tatiana A.;
Zhudenkov, Kirill V.;
Demin, Oleg O.;
Svetlichny, Dmitry V.;
Agoram, Balaji;
Fairman, David;
Demin, Oleg V.

Publication type:

Article

A proof for loop-law constraints in stoichiometric metabolic networks.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 140, doi. 10.1186/1752-0509-6-140

By:

Noor, Elad;
Lewis, Nathan E.;
Milo, Ron

Publication type:

Article

Robust synchronization control scheme of a population of nonlinear stochastic synthetic genetic oscillators under intrinsic and extrinsic molecular noise via quorum sensing.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 136, doi. 10.1186/1752-0509-6-136

By:

Bor-Sen Chen;
Chih-Yuan Hsu

Publication type:

Article

Gene autoregulation via intronic microRNAs and its functions.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 131, doi. 10.1186/1752-0509-6-131

By:

Bosia, Carla;
Osella, Matteo;
El Baroudi, Mariama;
Cor…, Davide;
Caselle, Michele

Publication type:

Article

Protein stickiness, rather than number of functional protein-protein interactions, predicts expression noise and plasticity in yeast.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 128, doi. 10.1186/1752-0509-6-128

By:

Brettner, Leandra M.;
Masel, Joanna

Publication type:

Article

A reconfigurable NAND/NOR genetic logic gate.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 126, doi. 10.1186/1752-0509-6-126

By:

Go¤i-Moreno, Angel;
Amos, Martyn

Publication type:

Article

Computational modeling of apoptotic signaling pathways induced by cisplatin.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 122, doi. 10.1186/1752-0509-6-122

By:

Ji-Young Hong;
Geun-Hong Kim;
Jun-Woo Kim;
Soon-Sung Kwon;
Eisuke F. Sato;
Kwang-Hyun Cho;
Eun Bo Shim

Publication type:

Article

Network-based assessment of the selectivity of metabolic drug targets in Plasmodium falciparum with respect to human liver metabolism.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 118, doi. 10.1186/1752-0509-6-118

By:

Bazzani, Susanna;
Hoppe, Andreas;
Holzhtter, Hermann-Georg

Publication type:

Article

Continuous time boolean modeling for biological signaling: application of Gillespie algorithm.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 116, doi. 10.1186/1752-0509-6-116

By:

Stoll, Gautier;
Viara, Eric;
Barillot, Emmanuel;
Calzone, Laurence

Publication type:

Article

Stochastic Boolean networks: An efficient approach to modeling gene regulatory networks.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 113, doi. 10.1186/1752-0509-6-113

By:

Jinghang Liang;
Jie Han

Publication type:

Article

Topological effects of data incompleteness of gene regulatory networks.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 110, doi. 10.1186/1752-0509-6-110

By:

Sanz, Joaquin;
Cozzo, Emanuele;
Borge-Holthoefer, Javier;
Moreno, Yamir

Publication type:

Article

Designing optimal cell factories: integer programming couples elementary mode analysis with regulation.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 103, doi. 10.1186/1752-0509-6-103

By:

Jungreuthmayer, Christian;
Zanghellini, Jrgen

Publication type:

Article

A variational approach to parameter estimation in ordinary differential equations.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 99, doi. 10.1186/1752-0509-6-99

By:

Kaschek, Daniel;
Timmer, Jens

Publication type:

Article

Bayesian model selection validates a biokinetic model for zirconium processing in humans.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 95, doi. 10.1186/1752-0509-6-95

By:

Schmidl, Daniel;
Hug, Sabine;
Wei Bo Li;
Greiter, Matthias B.;
Theis, Fabian J.

Publication type:

Article

Condor-COPASI: high-throughput computing for biochemical networks.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 91, doi. 10.1186/1752-0509-6-91

By:

Kent, Edward;
Hoops, Stefan;
Mendes, Pedro

Publication type:

Article

A higher-order numerical framework for stochastic simulation of chemical reaction systems.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 85, doi. 10.1186/1752-0509-6-85

By:

Sz‚kely Jr, Tam s;
Burrage, Kevin;
Erban, Radek;
Zygalakis, Konstantinos C.

Publication type:

Article

An investigation of spatial signal transduction in cellular networks.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 83, doi. 10.1186/1752-0509-6-83

By:

Alam-Nazki, Aiman;
Krishnan, J.

Publication type:

Article

Efficient parametric analysis of the chemical master equation through model order reduction.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 81, doi. 10.1186/1752-0509-6-81

By:

Waldherr, Steffen;
Haasdonk, Bernard

Publication type:

Article

Dynamic optimization of distributed biological systems using robust and efficient numerical techniques.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 79, doi. 10.1186/1752-0509-6-79

By:

Vilas, Carlos;
Balsa-Canto, Eva;
Garc¡a, Maria-Sonia G.;
Banga, Julio R.;
Alonso, Antonio A.

Publication type:

Article

Integrated pathway modules using time-course metabolic profiles and EST data from Milnesium tardigradum.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 72, doi. 10.1186/1752-0509-6-72

By:

Beisser, Daniela;
Grohme, Markus A.;
Kopka, Joachim;
Frohme, Marcus;
Schill, Ralph O.;
Hengherr, Steffen;
Dandekar, Thomas;
Klau, Gunnar W.;
Dittrich, Marcus;
Mller, Tobias

Publication type:

Article

Simultaneous learning of instantaneous and time-delayed genetic interactions using novel information theoretic scoring technique.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 62, doi. 10.1186/1752-0509-6-62

By:

Morshed, Nizamul;
Chetty, Madhu;
Nguyen Xuan Vinh

Publication type:

Article

Identifying targets of multiple co-regulating transcription factors from expression time-series by Bayesian model comparison.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 53, doi. 10.1186/1752-0509-6-53

By:

Titsias, Michalis K.;
Honkela, Antti;
Lawrence, Neil D.;
Rattray, Magnus

Publication type:

Article

Inferring biochemical reaction pathways: the case of the gemcitabine pharmacokinetics.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 51, doi. 10.1186/1752-0509-6-51

By:

Lecca, Paola;
Morpurgo, Daniele;
Fantaccini, Gianluca;
Casagrande, Alessandro;
Priami, Corrado

Publication type:

Article

A specialized ODE integrator for the efficient computation of parameter sensitivities.

Published in:

BMC Systems Biology, 2012, v. 6, n. 1, p. 46, doi. 10.1186/1752-0509-6-46

By:

Gonnet, Pedro;
Dimopoulos, Sotiris;
Widmer, Lukas;
Stelling, Jörg

Publication type:

Article