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Jacques van Helden
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2020 – today
- 2022
- [j26]Walter Santana-Garcia
, Jaime Abraham Castro-Mondragón
RSAT 2022: regulatory sequence analysis tools. Nucleic Acids Res. 50(W1): 670-676 (2022)
2010 – 2019
- 2018
- [j25]Dimitri Desvillechabrol, Rachel Legendre
Sequanix: a dynamic graphical interface for Snakemake workflows. Bioinform. 34(11): 1934-1936 (2018) - [j24]Nga Thi Thuy Nguyen, Bruno Contreras-Moreira
RSAT 2018: regulatory sequence analysis tools 20th anniversary. Nucleic Acids Res. 46(Webserver-Issue): W209-W214 (2018) - 2015
- [j23]Alejandra Medina-Rivera
RSAT 2015: Regulatory Sequence Analysis Tools. Nucleic Acids Res. 43(Webserver-Issue): W50-W56 (2015) - 2012
- [c5]Frédérique Lisacek, Patrick Koks, Pascale Berthault, Grégoire Rossier, Guy Bottu, Jacques van Helden, Jean Sylvestre, Jean-Pierre Kraehenbuhl, Jack A. M. Leunissen:
eBiomics - A Website Promoting Good Practices and Specific Methods for using Bioinformatics Resources. BIOINFORMATICS 2012: 386-391 - 2011
- [j22]Karoline Faust
Prediction of metabolic pathways from genome-scale metabolic networks. Biosyst. 105(2): 109-121 (2011) - [j21]Morgane Thomas-Chollier
RSAT 2011: regulatory sequence analysis tools. Nucleic Acids Res. 39(Web-Server-Issue): 86-91 (2011) - 2010
- [j20]Karoline Faust, Pierre Dupont, Jérôme Callut, Jacques van Helden
Pathway discovery in metabolic networks by subgraph extraction. Bioinform. 26(9): 1211-1218 (2010)
2000 – 2009
- 2009
- [j19]Matthieu Defrance
info-gibbs: a motif discovery algorithm that directly optimizes information content during sampling. Bioinform. 25(20): 2715-2722 (2009) - [j18]Olivier Sand
Retrieve-ensembl-seq: user-friendly and large-scale retrieval of single or multi-genome sequences from Ensembl. Bioinform. 25(20): 2739-2740 (2009) - [j17]Karoline Faust
In response to 'Can sugars be produced from fatty acids? A test case for pathway analysis tools'. Bioinform. 25(23): 3202-3205 (2009) - [c4]Kevin Kontos, Bruno André, Jacques van Helden, Gianluca Bontempi
Gaussian Graphical Models to Infer Putative Genes Involved in Nitrogen Catabolite Repression in S. cerevisiae. EvoBIO 2009: 13-24 - 2008
- [j16]Gipsi Lima-Mendez
Prophinder: a computational tool for prophage prediction in prokaryotic genomes. Bioinform. 24(6): 863-865 (2008) - [j15]Rekin's Janky
Evaluation of phylogenetic footprint discovery for predicting bacterial cis-regulatory elements and revealing their evolution. BMC Bioinform. 9 (2008) - [j14]Morgane Thomas-Chollier
RSAT: regulatory sequence analysis tools. Nucleic Acids Res. 36(Web-Server-Issue): 119-127 (2008) - [j13]Sylvain Brohée, Karoline Faust
NeAT: a toolbox for the analysis of biological networks, clusters, classes and pathways. Nucleic Acids Res. 36(Web-Server-Issue): 444-451 (2008) - 2007
- [j12]Najib Naamane, Jacques van Helden
In silico identification of NF-kappaB-regulated genes in pancreatic beta-cells. BMC Bioinform. 8 (2007) - 2006
- [j11]Sylvain Brohée, Jacques van Helden
Evaluation of clustering algorithms for protein-protein interaction networks. BMC Bioinform. 7: 488 (2006) - 2005
- [j10]Didier Gonze, Sylvie Pinloche, Olivier Gascuel, Jacques van Helden
Discrimination of yeast genes involved in methionine and phosphate metabolism on the basis of upstream motifs. Bioinform. 21(17): 3490-3500 (2005) - [j9]Ulrich Güldener
CYGD: the Comprehensive Yeast Genome Database. Nucleic Acids Res. 33(Database-Issue): 364-368 (2005) - [j8]Didier Croes, Fabian Couche, Shoshana J. Wodak, Jacques van Helden
Metabolic PathFinding: inferring relevant pathways in biochemical networks. Nucleic Acids Res. 33(Web-Server-Issue): 326-330 (2005) - 2004
- [j7]Jacques van Helden
Metrics for comparing regulatory sequences on the basis of pattern counts. Bioinform. 20(3): 399-406 (2004) - [j6]Nicolas Simonis
Combining pattern discovery and discriminant analysis to predict gene co-regulation. Bioinform. 20(15): 2370-2379 (2004) - 2003
- [j5]Yves Deville
An overview of data models for the analysis of biochemical pathways. Briefings Bioinform. 4(3): 246-259 (2003) - [j4]Jacques van Helden
Regulatory Sequence Analysis Tools. Nucleic Acids Res. 31(13): 3593-3596 (2003) - [c3]Yves Deville, David R. Gilbert, Jacques van Helden
An Overview of Data Models for the Analysis of Biochemical Pathways. CMSB 2003: 174 - 2001
- [j3]Jacques van Helden
From Molecular Activities and Processes to Biological Function. Briefings Bioinform. 2(1): 81-107 (2001) - [j2]Michael Schroeder, David R. Gilbert, Jacques van Helden
Approaches to visualisation in bioinformatics: from dendrograms to Space Explorer. Inf. Sci. 139(1-2): 19-57 (2001) - 2000
- [c2]Jacques van Helden, David R. Gilbert, Lorenz Wernisch, Michael Schroeder, Shoshana J. Wodak:
Application of Regulatory Sequence Analysis and Metabolic Network Analysis to the Interpretation of Gene Expression Data. JOBIM 2000: 147-164
1990 – 1999
- 1999
- [j1]Heladia Salgado, Alberto Santos-Zavaleta
RegulonDB (version 2.0): a database on transcriptional regulation in Escherichia coli. Nucleic Acids Res. 27(1): 59-60 (1999) - [c1]Jacques van Helden, David R. Gilbert, Lorenz Wernisch, Renato Mancuso, Matthew D. Eldridge, Kirill Degtyarenko, Shoshana J. Wodak:
Logical Tools for Quering and Assisting Annotation of a Biochemical Pathway Database. German Conference on Bioinformatics 1999: 227-229
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