Regulatory Sequence Analysis Tools

Por van Helden, Jacques
Publicado em 2003

Evaluation of clustering algorithms for protein-protein interaction networks

Por Brohée, Sylvain, van Helden, Jacques
Publicado em 2006

Evaluation of phylogenetic footprint discovery for predicting bacterial cis-regulatory elements and revealing their evolution

Por Janky, Rekin's, van Helden, Jacques
Publicado em 2008

In silico identification of NF-kappaB-regulated genes in pancreatic beta-cells

Por Naamane, Najib, van Helden, Jacques, Eizirik, Decio L
Publicado em 2007

Pathway discovery in metabolic networks by subgraph extraction

Por Faust, Karoline, Dupont, Pierre, Callut, Jérôme, van Helden, Jacques
Publicado em 2010

Metabolic PathFinding: inferring relevant pathways in biochemical networks

Por Croes, Didier, Couche, Fabian, Wodak, Shoshana J., van Helden, Jacques
Publicado em 2005

Fine-Tuning Enhancer Models to Predict Transcriptional Targets across Multiple Genomes

Por Aerts, Stein, van Helden, Jacques, Sand, Olivier, Hassan, Bassem A.
Publicado em 2007

Transcriptional regulation of protein complexes in yeast

Por Simonis, Nicolas, van Helden, Jacques, Cohen, George N, Wodak, Shoshana J
Publicado em 2004

Machine learning techniques to identify putative genes involved in nitrogen catabolite repression in the yeast Saccharomyces cerevisiae

Por Kontos, Kevin, Godard, Patrice, André, Bruno, van Helden, Jacques, Bontempi, Gianluca
Publicado em 2008

Transcriptional and epigenetic signatures of zygotic genome activation during early drosophila embryogenesis

Por Darbo, Elodie, Herrmann, Carl, Lecuit, Thomas, Thieffry, Denis, van Helden, Jacques
Publicado em 2013

Integrative analysis of public ChIP-seq experiments reveals a complex multi-cell regulatory landscape

Por Griffon, Aurélien, Barbier, Quentin, Dalino, Jordi, van Helden, Jacques, Spicuglia, Salvatore, Ballester, Benoit
Publicado no Nucleic Acids Res (2015)

Transcription factor regulation can be accurately predicted from the presence of target gene signatures in microarray gene expression data

Por Essaghir, Ahmed, Toffalini, Federica, Knoops, Laurent, Kallin, Anders, van Helden, Jacques, Demoulin, Jean-Baptiste
Publicado em 2010

Unraveling networks of co-regulated genes on the sole basis of genome sequences

Por Brohée, Sylvain, Janky, Rekin’s, Abdel-Sater, Fadi, Vanderstocken, Gilles, André, Bruno, van Helden, Jacques
Publicado em 2011

RSAT peak-motifs: motif analysis in full-size ChIP-seq datasets

Por Thomas-Chollier, Morgane, Herrmann, Carl, Defrance, Matthieu, Sand, Olivier, Thieffry, Denis, van Helden, Jacques
Publicado em 2012

Effect of 21 Different Nitrogen Sources on Global Gene Expression in the Yeast Saccharomyces cerevisiae

Por Godard, Patrice, Urrestarazu, Antonio, Vissers, Stéphan, Kontos, Kevin, Bontempi, Gianluca, van Helden, Jacques, André, Bruno
Publicado em 2007

Integrating sequence, evolution and functional genomics in regulatory genomics

Por Vingron, Martin, Brazma, Alvis, Coulson, Richard, van Helden, Jacques, Manke, Thomas, Palin, Kimmo, Sand, Olivier, Ukkonen, Esko
Publicado em 2009

Theoretical and empirical quality assessment of transcription factor-binding motifs

Por Medina-Rivera, Alejandra, Abreu-Goodger, Cei, Thomas-Chollier, Morgane, Salgado, Heladia, Collado-Vides, Julio, van Helden, Jacques
Publicado em 2011

RSAT 2011: regulatory sequence analysis tools

Por Thomas-Chollier, Morgane, Defrance, Matthieu, Medina-Rivera, Alejandra, Sand, Olivier, Herrmann, Carl, Thieffry, Denis, van Helden, Jacques
Publicado em 2011

NeAT: a toolbox for the analysis of biological networks, clusters, classes and pathways

Por Brohée, Sylvain, Faust, Karoline, Lima-Mendez, Gipsi, Sand, Olivier, Janky, Rekin's, Vanderstocken, Gilles, Deville, Yves, van Helden, Jacques
Publicado em 2008

The chromatin environment shapes DNA replication origin organization and defines origin classes

Por Cayrou, Christelle, Ballester, Benoit, Peiffer, Isabelle, Fenouil, Romain, Coulombe, Philippe, Andrau, Jean-Christophe, van Helden, Jacques, Méchali, Marcel
Publicado no Genome Res (2015)