Emmanuel Barillot

According to our database1, Emmanuel Barillot authored at least 66 papers between 1998 and 2019.

Collaborative distances:
  • Dijkstra number2 of four.
  • Erdős number3 of four.



In proceedings 
PhD thesis 



On csauthors.net:


Metabolic and signalling network maps integration: application to cross-talk studies and omics data analysis in cancer.
BMC Bioinformatics, 2019

PhysiBoSS: a multi-scale agent-based modelling framework integrating physical dimension and cell signalling.
Bioinformatics, 2019

Robust and scalable learning of data manifolds with complex topologies via ElPiGraph.
CoRR, 2018

Effective normalization for copy number variation in Hi-C data.
BMC Bioinformatics, 2018

QuantumClone: clonal assessment of functional mutations in cancer based on a genotype-aware method for clonal reconstruction.
Bioinformatics, 2018

Signalling maps in cancer research: construction and data analysis.
Database, 2018

Application of Independent Component Analysis to Tumor Transcriptomes Reveals Specific and Reproducible Immune-Related Signals.
Proceedings of the Latent Variable Analysis and Signal Separation, 2018

MaBoSS 2.0: an environment for stochastic Boolean modeling.
Bioinformatics, 2017

NaviCom: a web application to create interactive molecular network portraits using multi-level omics data.
Database, 2017

SV-Bay: structural variant detection in cancer genomes using a Bayesian approach with correction for GC-content and read mappability.
Bioinformatics, 2016

Mathematical Modelling of Molecular Pathways Enabling Tumour Cell Invasion and Migration.
PLoS Computational Biology, 2015

NaviCell Web Service for network-based data visualization.
Nucleic Acids Research, 2015

DeDaL: Cytoscape 3 app for producing and morphing data-driven and structure-driven network layouts.
BMC Systems Biology, 2015

Multi-factor data normalization enables the detection of copy number aberrations in amplicon sequencing data.
Bioinformatics, 2014

Synthetic Lethality between Gene Defects Affecting a Single Non-essential Molecular Pathway with Reversible Steps.
PLoS Computational Biology, 2013

NaviCell: a web-based environment for navigation, curation and maintenance of large molecular interaction maps.
BMC Systems Biology, 2013

BiNoM 2.0, a Cytoscape plugin for accessing and analyzing pathways using standard systems biology formats.
BMC Systems Biology, 2013

OCSANA: optimal combinations of interventions from network analysis.
Bioinformatics, 2013

HMCan: a method for detecting chromatin modifications in cancer samples using ChIP-seq data.
Bioinformatics, 2013

Identification of Shortened 3′ untranslated Regions from Expression Arrays.
J. Bioinformatics and Computational Biology, 2012

Continuous time boolean modeling for biological signaling: application of Gillespie algorithm.
BMC Systems Biology, 2012

HiTC: exploration of high-throughput 'C' experiments.
Bioinformatics, 2012

ncPRO-seq: a tool for annotation and profiling of ncRNAs in sRNA-seq data.
Bioinformatics, 2012

Control-FREEC: a tool for assessing copy number and allelic content using next-generation sequencing data.
Bioinformatics, 2012

Nebula - a web-server for advanced ChIP-seq data analysis.
Bioinformatics, 2012

Control-free calling of copy number alterations in deep-sequencing data using GC-content normalization.
Bioinformatics, 2011

Mathematical Modelling of Cell-Fate Decision in Response to Death Receptor Engagement.
PLoS Computational Biology, 2010

Dynamical modeling of microRNA action on the protein translation process.
BMC Systems Biology, 2010

SVDetect: a tool to identify genomic structural variations from paired-end and mate-pair sequencing data.
Bioinformatics, 2010

girafe - an R/Bioconductor package for functional exploration of aligned next-generation sequencing reads.
Bioinformatics, 2010

Method for Relating Inter-patient Gene Copy Numbers Variations with Gene Expression via Gene Influence Networks.
Proceedings of the Workshops of the 5th IFIP Conference on Artificial Intelligence Applications & Innovations (AIAI-2009), 2009

Regulatory network reconstruction using an integral additive model with flexible kernel functions.
BMC Systems Biology, 2008

BiNoM: a Cytoscape plugin for manipulating and analyzing biological networks.
Bioinformatics, 2008

ITALICS: an algorithm for normalization and DNA copy number calling for Affymetrix SNP arrays.
Bioinformatics, 2008

Classification of arrayCGH data using fused SVM.
Proceedings of the Proceedings 16th International Conference on Intelligent Systems for Molecular Biology (ISMB), 2008

Classification of microarray data using gene networks.
BMC Bioinformatics, 2007

Software package for automatic microarray image analysis (MAIA).
Bioinformatics, 2007

LICORN: learning cooperative regulation networks from gene expression data.
Bioinformatics, 2007

CAPweb: a bioinformatics CGH array Analysis Platform.
Nucleic Acids Research, 2006

ITTACA: a new database for integrated tumor transcriptome array and clinical data analysis.
Nucleic Acids Research, 2006

A noise-resistant algorithm for grid finding in microarray image analysis.
Mach. Vis. Appl., 2006

Spatial normalization of array-CGH data.
BMC Bioinformatics, 2006

Computation of recurrent minimal genomic alterations from array-CGH data.
Bioinformatics, 2006

VAMP: Visualization and analysis of array-CGH, transcriptome and other molecular profiles.
Bioinformatics, 2006

A Robust Algorithm for Ratio Estimation in Two-color Microarray Experiments.
J. Bioinformatics and Computational Biology, 2005

An algorithm for automatic evaluation of the spot quality in two-color DNA microarray experiments.
BMC Bioinformatics, 2005

Analysis of array CGH data: from signal ratio to gain and loss of DNA regions.
Bioinformatics, 2004

Selecting biomedical data sources according to user preferences.
Proceedings of the Proceedings Twelfth International Conference on Intelligent Systems for Molecular Biology/Third European Conference on Computational Biology 2004, 2004

GénoPlante-Info (GPI): a collection of databases and bioinformatics resources for plant genomics.
Nucleic Acids Research, 2003

The GENETPIG database: a tool for comparative mapping in pig (Sus scrofa).
Nucleic Acids Research, 2003

Distributing CORBA views from an OODBMS.
Proceedings of the International Database Engineering & Applications Symposium, 2002

The art of pedigree drawing: algorithmic aspects.
Bioinformatics, 2001

XML, bioinformatics and data integration.
Bioinformatics, 2001

DBcat: a catalog of 500 biological databases.
Nucleic Acids Research, 2000

Control menus: excecution and control in a single interactor.
Proceedings of the CHI '00 Extended Abstracts on Human Factors in Computing Systems, 2000

Context and Interaction in Zooable User Interfaces.
Proceedings of the working conference on Advanced visual interfaces, 2000

DBcat: a catalog of biological databases.
Nucleic Acids Research, 1999

The HuGeMap Database: interconnection and visualization of human genome maps.
Nucleic Acids Research, 1999

Virgil database for rich links (1999 update).
Nucleic Acids Research, 1999

CoPE: a collaborative pedigree drawing environment.
Bioinformatics, 1999

A proposal for a standard CORBA interface for genome maps.
Bioinformatics, 1999

Proceedings of the 1999 International Database Engineering and Applications Symposium, 1999

HuGeMap: a distributed and integrated Human Genome Map database.
Nucleic Acids Research, 1998

Virgil: a database of rich links between GDB and GenBank.
Nucleic Acids Research, 1998

Zomit: biological data visualization and browsing.
Bioinformatics, 1998

The new Virgil database: a service of rich links.
Bioinformatics, 1998