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Predicting weighted unobserved nodes in a regulatory network using answer set programming

BMC bioinformatics, 2023-08, Vol.24 (Suppl 1), p.1-321, Article 321

2023

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Discriminate the response of Acute Myeloid Leukemia patients to treatment by using proteomics data and Answer Set Programming

BMC bioinformatics, 2018-03, Vol.19 (Suppl 2), p.59-59, Article 59

2018

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A pipeline to create predictive functional networks: application to the tumor progression of hepatocellular carcinoma

BMC bioinformatics, 2020-01, Vol.21 (1), p.18-14, Article 18

2020

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Therapeutic target discovery using Boolean network attractors: improvements of kali

Royal Society open science, 2018-02, Vol.5 (2), p.171852-171852

2018

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Computational discovery of dynamic cell line specific Boolean networks from multiplex time-course data

PLoS computational biology, 2018-10, Vol.14 (10), p.e1006538-e1006538

2018

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Logic programming reveals alteration of key transcription factors in multiple myeloma

Scientific reports, 2017-08, Vol.7 (1), p.9257-12, Article 9257

2017

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Boolean Network Identification from Multiplex Time Series Data

Computational Methods in Systems Biology, p.170-181

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Identification of bifurcation transitions in biological regulatory networks using Answer-Set Programming

Algorithms for molecular biology, 2017-07, Vol.12 (1), p.19-19, Article 19

2017

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BioQuali Cytoscape plugin: analysing the global consistency of regulatory networks

BMC genomics, 2009-05, Vol.10 (244), p.244-244

2009

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Inferring the role of transcription factors in regulatory networks

BMC bioinformatics, 2008-05, Vol.9 (1), p.228-228, Article 228

2008

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Boolean Network Models of Human Preimplantation Development

Journal of computational biology, 2024-06, Vol.31 (6), p.513-523

2024

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Extended notions of sign consistency to relate experimental data to signaling and regulatory network topologies

BMC bioinformatics, 2015-10, Vol.16 (1), p.345-345, Article 345

2015

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Exhaustively characterizing feasible logic models of a signaling network using Answer Set Programming

Bioinformatics, 2013-09, Vol.29 (18), p.2320-2326

2013

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Proteomics Versus Clinical Data and Stochastic Local Search Based Feature Selection for Acute Myeloid Leukemia Patients’ Classification

Journal of medical systems, 2018-07, Vol.42 (7), p.129-8, Article 129

2018

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caspo: a toolbox for automated reasoning on the response of logical signaling networks families

Bioinformatics (Oxford, England), 2017-03, Vol.33 (6), p.947-950

2017

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Mapping sequences by parts

Algorithms for molecular biology, 2007-09, Vol.2 (1), p.11-11, Article 11

2007

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Constraints on signaling network logic reveal functional subgraphs on Multiple Myeloma OMIC data

BMC systems biology, 2018-03, Vol.12 (Suppl 3), p.32-32, Article 32

2018

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Boolean network identification from perturbation time series data combining dynamics abstraction and logic programming

BioSystems, 2016-11, Vol.149, p.139-153

2016

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Learning Boolean logic models of signaling networks with ASP

Theoretical computer science, 2015-09, Vol.599 (599), p.79-101

2015

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Large-scale regulatory and signaling network assembly through linked open data

Database : the journal of biological databases and curation, 2021-01, Vol.2021

2021

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Inferring Boolean Networks from Single-Cell Human Embryo Datasets

Bioinformatics Research and Applications, 2023, Vol.14248, p.431-441

2023

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Deciphering transcriptional regulations coordinating the response to environmental changes

BMC bioinformatics, 2016-01, Vol.17 (19), p.35-35, Article 35

2016

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Exhaustively characterizing feasible logic models of a signaling network using Answer Set Programming

Bioinformatics (Oxford, England), 2014-07, Vol.30 (13), p.1942-1942

2014

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A crowdsourced analysis to identify ab initio molecular signatures predictive of susceptibility to viral infection

Nature communications, 2018-10, Vol.9 (1), p.4418-11, Article 4418

2018

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Automatic generation of causal networks linking growth factor stimuli to functional cell state changes

The FEBS journal, 2012-09, Vol.279 (18), p.3462-3474

2012

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Predicting weighted unobserved nodes in a regulatory network using answer set programming

Discriminate the response of Acute Myeloid Leukemia patients to treatment by using proteomics data and Answer Set Programming

A pipeline to create predictive functional networks: application to the tumor progression of hepatocellular carcinoma

Therapeutic target discovery using Boolean network attractors: improvements of kali

Computational discovery of dynamic cell line specific Boolean networks from multiplex time-course data

Logic programming reveals alteration of key transcription factors in multiple myeloma

Boolean Network Identification from Multiplex Time Series Data

Identification of bifurcation transitions in biological regulatory networks using Answer-Set Programming

BioQuali Cytoscape plugin: analysing the global consistency of regulatory networks

Inferring the role of transcription factors in regulatory networks

Boolean Network Models of Human Preimplantation Development

Extended notions of sign consistency to relate experimental data to signaling and regulatory network topologies

Exhaustively characterizing feasible logic models of a signaling network using Answer Set Programming

Proteomics Versus Clinical Data and Stochastic Local Search Based Feature Selection for Acute Myeloid Leukemia Patients’ Classification

caspo: a toolbox for automated reasoning on the response of logical signaling networks families

Mapping sequences by parts

Constraints on signaling network logic reveal functional subgraphs on Multiple Myeloma OMIC data

Boolean network identification from perturbation time series data combining dynamics abstraction and logic programming

Learning Boolean logic models of signaling networks with ASP

Large-scale regulatory and signaling network assembly through linked open data

Inferring Boolean Networks from Single-Cell Human Embryo Datasets

Deciphering transcriptional regulations coordinating the response to environmental changes

Exhaustively characterizing feasible logic models of a signaling network using Answer Set Programming

A crowdsourced analysis to identify ab initio molecular signatures predictive of susceptibility to viral infection

Automatic generation of causal networks linking growth factor stimuli to functional cell state changes

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