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

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

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

http://www.wikidata.org/entity/Q30573980

about

Logical Modeling and Dynamical Analysis of Cellular Networks Structure and dynamics of molecular networks: a novel paradigm of drug discovery: a comprehensive review SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools Quantitative and logic modelling of molecular and gene networks Statistical Methods in Integrative Genomics Leveraging systems biology approaches in clinical pharmacology Coordinating Role of RXRα in Downregulating Hepatic Detoxification during Inflammation Revealed by Fuzzy-Logic Modeling A Network-Based Data Integration Approach to Support Drug Repurposing and Multi-Target Therapies in Triple Negative Breast Cancer Path2Models: large-scale generation of computational models from biochemical pathway maps Navigating the multilayered organization of eukaryotic signaling: a new trend in data integration.Extended notions of sign consistency to relate experimental data to signaling and regulatory network topologies.Data-driven reverse engineering of signaling pathways using ensembles of dynamic models.MEIGO: an open-source software suite based on metaheuristics for global optimization in systems biology and bioinformatics.Boolean ErbB network reconstructions and perturbation simulations reveal individual drug response in different breast cancer cell lines.Logic modeling and the ridiculome under the rug.Dynamic transcription factor activity and networks during ErbB2 breast oncogenesis and targeted therapy.SignaLink 2 - a signaling pathway resource with multi-layered regulatory networks Improving collaboration by standardization efforts in systems biology.Exhaustively characterizing feasible logic models of a signaling network using Answer Set Programming.Phosphoproteomic analyses reveal novel cross-modulation mechanisms between two signaling pathways in yeast optPBN: an optimisation toolbox for probabilistic Boolean networks.Multiscale analysis of the murine intestine for modeling human diseases.Discrete Logic Modelling Optimization to Contextualize Prior Knowledge Networks Using PRUNET.A Semiquantitative Framework for Gene Regulatory Networks: Increasing the Time and Quantitative Resolution of Boolean Networks.Dynamical modeling of uncertain interaction-based genomic networks.FlexFlux: combining metabolic flux and regulatory network analyses CABeRNET: a Cytoscape app for augmented Boolean models of gene regulatory NETworks Reverse engineering of logic-based differential equation models using a mixed-integer dynamic optimization approach Modelling with ANIMO: between fuzzy logic and differential equations.Boolean regulatory network reconstruction using literature based knowledge with a genetic algorithm optimization method.Efficient randomization of biological networks while preserving functional characterization of individual nodes Population Heterogeneity in the Epithelial to Mesenchymal Transition Is Controlled by NFAT and Phosphorylated Sp1.Prediction of disease-gene-drug relationships following a differential network analysis.A Six-Stage Workflow for Robust Application of Systems Pharmacology.Recent development and biomedical applications of probabilistic Boolean networks.Mechanistic vs. Empirical network models of drug action Cyrface: An interface from Cytoscape to R that provides a user interface to R packages.A parallel metaheuristic for large mixed-integer dynamic optimization problems, with applications in computational biology.Logic Modeling in Quantitative Systems Pharmacology.FALCON: a toolbox for the fast contextualization of logical networks.

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P2860

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

http://www.wikidata.org/entity/Q30573980

description

2012 nî lūn-bûn

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2012 թուականի Հոկտեմբերին հրատարակուած գիտական յօդուած

@hyw

2012 թվականի հոտեմբերին հրատարակված գիտական հոդված

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2012年の論文

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2012年論文

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2012年論文

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2012年論文

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2012年論文

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2012年論文

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2012年论文

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CellNOptR: a flexible toolkit ...... ing multiple logic formalisms.

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CellNOptR: a flexible toolkit ...... ing multiple logic formalisms.

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CellNOptR: a flexible toolkit ...... ing multiple logic formalisms.

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BMC Systems Biology

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CellNOptR: a flexible toolkit ...... ing multiple logic formalisms.

@en

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David Henriques

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Melody K Morris

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P2860

Structural and functional analysis of cellular networks with CellNetAnalyzer

Pathway Commons, a web resource for biological pathway data

PID: the Pathway Interaction Database

PANTHER: a browsable database of gene products organized by biological function, using curated protein family and subfamily classification

Reactome: a knowledgebase of biological pathways

Metabolic stability and epigenesis in randomly constructed genetic nets

Identifying drug effects via pathway alterations using an integer linear programming optimization formulation on phosphoproteomic data

ON/OFF and beyond--a boolean model of apoptosis

Training signaling pathway maps to biochemical data with constrained fuzzy logic: quantitative analysis of liver cell responses to inflammatory stimuli

Creating and analyzing pathway and protein interaction compendia for modelling signal transduction networks

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1752-0509-6-133

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6

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Martijn P van Iersel

Emanuel Gonçalves

Julio Saez-Rodriguez

Aidan Macnamara

Thomas Cokelaer

Douglas A Lauffenburger

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3605281

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