Works matching IS 17520509 AND DT 2015 AND VI 9 AND IP 1

Results: 93

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

Nonlinear mixed-effects modelling for single cell estimation: when, why, and how to use it.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0203-x

By:

Karlsson, Markus;
Janzén, David L. I.;
Durrieu, Lucia;
Colman-Lerner, Alejandro;
Kjellsson, Maria C.;
Cedersund, Gunnar

Publication type:

Article

The wright stuff: reimagining path analysis reveals novel components of the sex determination hierarchy in drosophila melanogaster.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0200-0

By:

Fear, Justin M.;
Arbeitman, Michelle N.;
Salomon, Matthew P.;
Dalton, Justin E.;
Tower, John;
Nuzhdin, Sergey V.;
McIntyre, Lauren M.

Publication type:

Article

A correction method for systematic error in <sup>1</sup>H-NMR time-course data validated through stochastic cell culture simulation.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0197-4

By:

Sokolenko, Stanislav;
Aucoin, Marc G.

Publication type:

Article

Erratum to: ppiPre: predicting protein-protein interactions by combining heterogeneous features.

Published in:: 2015
Publication type:: Correction Notice

A tree-like Bayesian structure learning algorithm for small-sample datasets from complex biological model systems.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0194-7

By:

Weiwei Yin;
Garimalla, Swetha;
Moreno, Alberto;
Galinski, Mary R.;
Styczynski, Mark P.

Publication type:

Article

Stochastic simulation of Boolean rxncon models: towards quantitative analysis of large signaling networks.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0193-8

By:

Tomoya Mori;
Flöttmann, Max;
Krantz, Marcus;
Tatsuya Akutsu;
Klipp, Edda

Publication type:

Article

The organization of domains in proteins obeys Menzerath-Altmann's law of language.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0192-9

By:

Shahzad, Khuram;
Mittenthal, Jay E.;
Caetano-Anollés, Gustavo

Publication type:

Article

An algorithm for the reduction of genome-scale metabolic network models to meaningful core models.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0191-x

By:

Erdrich, Philipp;
Steuer, Ralf;
Klamt, Steffen

Publication type:

Article

Genome-scale metabolic model of Rhodococcus jostii RHA1 (iMT1174) to study the accumulation of storage compounds during nitrogen-limited condition.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0190-y

By:

Tajparast, Mohammad;
Frigon, Dominic

Publication type:

Article

DeDaL: Cytoscape 3 app for producing and morphing data-driven and structure-driven network layouts.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0189-4

By:

Czerwinska, Urszula;
Calzone, Laurence;
Barillot, Emmanuel;
Zinovyev, Andrei

Publication type:

Article

Computational modeling of sphingolipid metabolism.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0176-9

By:

Wronowska, Weronika;
Charzyńska, Agata;
Nienałtowski, Karol;
Gambin, Anna

Publication type:

Article

Regulation of ERK-MAPK signaling in human epidermis.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0187-6

By:

Cursons, Joseph;
Gao, Jerry;
Hurley, Daniel G.;
Print, Cristin G.;
Dunbar, P. Rod;
Jacobs, Marc D.;
Crampin, Edmund J.

Publication type:

Article

Identification of putative drug targets for human sperm-egg interaction defect using protein network approach.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0186-7

By:

Sabetian, Soudabeh;
Shamsir, Mohd Shahir

Publication type:

Article

Complex regulation of Hsf1-Skn7 activities by the catalytic subunits of PKA in Saccharomyces cerevisiae: experimental and computational evidences.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0185-8

By:

Pérez-Landero, Sergio;
Sandoval-Motta, Santiago;
Marténez-Anaya, Claudia;
Yang, Runying;
Folch-Mallol, Jorge Luis;
Martínez, Luz María;
Ventura, Larissa;
Guillén-Navarro, Karina;
Aldana-González, Maximino;
Nieto-Sotelo, Jorge

Publication type:

Article

Finding directionality and gene-disease predictions in disease associations.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0184-9

By:

Garcia-Albornoz, Manuel;
Nielsen, Jens

Publication type:

Article

Logical-continuous modelling of post-translationally regulated bistability of curli fiber expression in Escherichia coli.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0183-x

By:

Yousef, Kaveh Pouran;
Streck, Adam;
Schütte, Christof;
Siebert, Heike;
Hengge, Regine;
von Kleist, Max

Publication type:

Article

Estimating cell diffusivity and cell proliferation rate by interpreting IncuCyte ZOOM™ assay data using the Fisher-Kolmogorov model.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0182-y

By:

Johnston, Stuart T.;
Shah, Esha T.;
Chopin, Lisa K.;
Sean McElwain, D. L.;
Simpson, Matthew J.

Publication type:

Article

The gastrin and cholecystokinin receptors mediated signaling network: a scaffold for data analysis and new hypotheses on regulatory mechanisms.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0181-z

By:

Tripathi, Sushil;
Flobak, Åsmund;
Chawla, Konika;
Baudot, Anaïs;
Bruland, Torunn;
Thommesen, Liv;
Kuiper, Martin;
Lægreid, Astrid

Publication type:

Article

Validation and selection of ODE based systems biology models: how to arrive at more reliable decisions.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0180-0

By:

Hasdemir, Dicle;
Hoefsloot, Huub C. J.;
Smilde, Age K.

Publication type:

Article

CytoASP: a Cytoscape app for qualitative consistency reasoning, prediction and repair in biological networks.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0179-6

By:

Kittas, Aristotelis;
Barozet, Amélie;
Sereshti, Jekaterina;
Grabe, Niels;
Tsoka, Sophia

Publication type:

Article

Systems biology surveillance decrypts pathological transcriptome remodeling.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0177-8

By:

Faustino, Randolph S.;
Wyles, Saranya P.;
Groenendyk, Jody;
Michalak, Marek;
Terzic, Andre;
Perez-Terzic, Carmen

Publication type:

Article

SEEK: a systems biology data and model management platform.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0174-y

By:

Wolstencroft, Katherine;
Owen, Stuart;
Krebs, Olga;
Nguyen, Quyen;
Stanford, Natalie J.;
Golebiewski, Martin;
Weidemann, Andreas;
Bittkowski, Meik;
An, Lihua;
Shockley, David;
Snoep, Jacky L.;
Mueller, Wolfgang;
Goble, Carole

Publication type:

Article

Uncovering distinct protein-network topologies in heterogeneous cell populations.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0170-2

By:

Wieczorek, Jakob;
Malik-Sheriff, Rahuman S.;
Fermin, Yessica;
Grecco, Hernán E.;
Zamir, Eli;
Ickstadt, Katja

Publication type:

Article

CD8<sup>+</sup> T cell response to adenovirus vaccination and subsequent suppression of tumor growth: modeling, simulation and analysis.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0168-9

By:

Qing Wang;
Klinke, David J.;
Zhijun Wang

Publication type:

Article

Genome-scale resources for Thermoanaerobacterium saccharolyticum.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0159-x

By:

Currie, Devin H.;
Raman, Babu;
Gowen, Christopher M.;
Tschaplinski, Timothy J.;
Land, Miriam L.;
Brown, Steven D.;
Covalla, Sean F.;
Klingeman, Dawn M.;
Yang, Zamin K.;
Engle, Nancy L.;
Johnson, Courtney M.;
Rodriguez, Miguel;
Shaw, A. Joe;
Kenealy1, William R.;
Lynd, Lee R.;
Fong, Stephen S.;
Mielenz, Jonathan R.;
Davison, Brian H.;
Hogsett, David A.;
Herring, Christopher D.

Publication type:

Article

Complex regulation of Hsf1-Skn7 activities by the catalytic subunits of PKA in Saccharomyces cerevisiae: experimental and computational evidences.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 42, doi. 10.1186/s12918-015-0185-8

By:

Pérez-Landero, Sergio;
Sandoval-Motta, Santiago;
Martínez-Anaya, Claudia;
Yang, Runying;
Folch-Mallol, Jorge Luis;
Martínez, Luz María;
Ventura, Larissa;
Guillén-Navarro, Karina;
Aldana-González, Maximino;
Nieto-Sotelo, Jorge

Publication type:

Article

Regulation of ERK-MAPK signaling in human epidermis.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 41, doi. 10.1186/s12918-015-0187-6

By:

Cursons, Joseph;
Gao, Jerry;
Hurley, Daniel G.;
Print, Cristin G.;
Dunbar, P. Rod;
Jacobs, Marc D.;
Crampin, Edmund J.

Publication type:

Article

The gastrin and cholecystokinin receptors mediated signaling network: a scaffold for data analysis and new hypotheses on regulatory mechanisms.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 40, doi. 10.1186/s12918-015-0181-z

By:

Tripathi, Sushil;
Flobak, Åsmund;
Chawla, Konika;
Baudot, Anaïs;
Bruland, Torunn;
Thommesen, Liv;
Kuiper, Martin;
Lægreid, Astrid

Publication type:

Article

Logical-continuous modelling of post-translationally regulated bistability of curli fiber expression in Escherichia coli

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 39, doi. 10.1186/s12918-015-0183-x

By:

Kaveh Pouran Yousef;
Streck, Adam;
Schütte, Christof;
Siebert, Heike;
Hengge, Regine;
von Kleist, Max

Publication type:

Article

Estimating cell diffusivity and cell proliferation rate by interpreting IncuCyte ZOOM™ assay data using the Fisher-Kolmogorov model

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 38, doi. 10.1186/s12918-015-0182-y

By:

Johnston, Stuart T.;
Shah, Esha T.;
Chopin, Lisa K.;
SeanMcElwain, D. L.;
Simpson, Matthew J.

Publication type:

Article

Identification of putative drug targets for human sperm-egg interaction defect using protein network approach.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 37, doi. 10.1186/s12918-015-0186-7

By:

Sabetian, Soudabeh;
Shamsir, Mohd Shahir

Publication type:

Article

Systems biology surveillance decrypts pathological transcriptome remodeling

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 36, doi. 10.1186/s12918-015-0177-8

By:

Faustino, Randolph S.;
Wyles, Saranya P.;
Groenendyk, Jody;
Michalak, Marek;
Terzic, Andre;
Perez-Terzic, Carmen

Publication type:

Article

From ERα66 to ERα36: a generic method for validating a prognosis marker of breast tumor progression.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0178-7

By:

Chamard-Jovenin, Clémence;
Jung, Alain C.;
Chesnel, Amand;
Abecassis, Joseph;
Flament, Stéphane;
Ledrappier, Sonia;
Macabre, Christine;
Boukhobza, Taha;
Dumond, Hélène

Publication type:

Article

Domain-specific model selection for structural identification of the Rab5-Rab7 dynamics in endocytosis.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0175-x

By:

Tanevski, Jovan;
Todorovski, Ljupco;
Kalaidzidis, Yannis;
Džeroski, Sašo

Publication type:

Article

Dynamics of the discovery process of protein-protein interactions from low content studies.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0173-z

By:

Zichen Wang;
Clark, Neil R.;
Ma'ayan, Avi

Publication type:

Article