Jacques van Helden

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THOMAS-CHOLLIER Morganeassociate professor, Ecole Normale Supérieure ParisVerified email at biologie.ens.fr
Denis ThieffryProfessor of Systems Biology, Institut de Biologie de l'Ecole Normale Supérieure (IBENS), ParisVerified email at ens.fr
Matthieu DefranceAssociate Professor, Université Libre de BruxellesVerified email at ulb.be
Julio Collado-VidesProfessor of Computational Genomics, CCG, UNAMVerified email at ccg.unam.mx
Alejandra Medina-RiveraLaboratorio Internacional de Investigación sobre el Genoma Humano, Universidad Nacional Autónoma deVerified email at liigh.unam.mx
Bruno AndréProfessor, Université Libre de Bruxelles (ULB)Verified email at ulb.ac.be
David GilbertProfessor of Computer Science, Brunel UniversityVerified email at brunel.ac.uk
Rekin's JankyPost-doctoral fellow FWO, KU LeuvenVerified email at med.kuleuven.be
Gipsi Lima MendezU.NamurVerified email at uclouvain.be
Sylvain BrohéePost-doctoral researcherVerified email at bigre.ulb.ac.be
Carl HerrmannLecturer - Health Data Science Unit - BioQuant and Medical Faculty HeidelbergVerified email at uni-heidelberg.de
Bruno Contreras-MoreiraSpanish National Research Council, Estación Experimental de Aula DeiVerified email at eead.csic.es
Lorenz WernischBIOS HealthVerified email at mrc-bsu.cam.ac.uk
Christian LemerUniversité Libre de BruxellesVerified email at ulb.ac.be
Michael SchroederProfessor in Bioinformatics, TU DresdenVerified email at biotec.tu-dresden.de
José E Pérez-OrtínProfesor de Biología MolecularVerified email at uv.es
Werner MewesProfessor of Bioinformatics (retired), Technische Univ. MünchenVerified email at mytum.de
Yves DevilleProfessor of Computer Science, Université catholique de Louvain, ICTEAM, EPLVerified email at uclouvain.be
Gianluca BontempiUniversité Libre de BruxellesVerified email at ulb.ac.be
Benoit BallesterINSERM - National Institute of Health and Medical ResearchVerified email at inserm.fr

Jacques van Helden

Aix-Marseille Université

Verified email at univ-amu.fr - Homepage

Bioinformatics biostatistics genome analysis gene regulation metabolism


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Assessing computational tools for the discovery of transcription factor binding sites M Tompa, N Li, TL Bailey, GM Church, B De Moor, E Eskin, AV Favorov, ... Nature biotechnology 23 (1), 137-144, 2005	1569	2005
Evaluation of clustering algorithms for protein-protein interaction networks S Brohee, J van Helden BMC bioinformatics 7 (1), 488, 2006	1018	2006
Extracting regulatory sites from the upstream region of yeast genes by computational analysis of oligonucleotide frequencies J van Helden, B André, J Collado-Vides Journal of molecular biology 281 (5), 827-842, 1998	1012	1998
Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures A Stark, MF Lin, P Kheradpour, JS Pedersen, L Parts, JW Carlson, ... Nature 450 (7167), 219, 2007	703	2007
Regulatory sequence analysis tools J Van Helden Nucleic acids research 31 (13), 3593-3596, 2003	529	2003
Discovering regulatory elements in non-coding sequences by analysis of spaced dyads J Helden, A Rios, J Collado-Vides Nucleic acids research 28 (8), 1808-1818, 2000	439	2000
CYGD: the comprehensive yeast genome database U Güldener, M Münsterkötter, G Kastenmüller, N Strack, J van Helden, ... Nucleic acids research 33 (suppl_1), D364-D368, 2005	401	2005
In vitro screening of a FDA approved chemical library reveals potential inhibitors of SARS-CoV-2 replication F Touret, M Gilles, K Barral, A Nougairède, J van Helden, E Decroly, ... Scientific reports 10 (1), 1-8, 2020	358	2020
RSAT: regulatory sequence analysis tools M Thomas-Chollier, O Sand, JV Turatsinze, R Janky, M Defrance, ... Nucleic acids research 36 (suppl_2), W119-W127, 2008	331	2008
Using RSAT to scan genome sequences for transcription factor binding sites and cis-regulatory modules JV Turatsinze, M Thomas-Chollier, M Defrance, J van Helden Nature protocols 3 (10), 1578-1588, 2008	289	2008
Effect of 21 different nitrogen sources on global gene expression in the yeast Saccharomyces cerevisiae P Godard, A Urrestarazu, S Vissers, K Kontos, G Bontempi, J van Helden, ... Molecular and cellular biology 27 (8), 3065-3086, 2007	288	2007
RSAT 2011: regulatory sequence analysis tools M Thomas-Chollier, M Defrance, A Medina-Rivera, O Sand, C Herrmann, ... Nucleic acids research 39 (suppl_2), W86-W91, 2011	284	2011
RSAT 2015: Regulatory Sequence Analysis Tools A Medina-Rivera, M Defrance, O Sand, C Herrmann, ... Nucleic acids research, gkv362, 2015	268	2015
RSAT peak-motifs: motif analysis in full-size ChIP-seq datasets M Thomas-Chollier, C Herrmann, M Defrance, O Sand, D Thieffry, ... Nucleic acids research 40 (4), e31-e31, 2011	246	2011
Reticulate representation of evolutionary and functional relationships between phage genomes G Lima-Mendez, J Van Helden, A Toussaint, R Leplae Molecular biology and evolution 25 (4), 762-777, 2008	244	2008
The powerful law of the power law and other myths in network biology G Lima-Mendez, J van Helden Molecular BioSystems 5 (12), 1482-1493, 2009	240	2009
Prophinder: a computational tool for prophage prediction in prokaryotic genomes G Lima-Mendez, J Van Helden, A Toussaint, R Leplae Bioinformatics 24 (6), 863-865, 2008	233	2008
A web site for the computational analysis of yeast regulatory sequences J van Helden, B André, J Collado‐Vides Yeast 16 (2), 177-187, 2000	219	2000
Genome-wide characterization of mammalian promoters with distal enhancer functions. LTM Dao, AO Galindo-Albarrán, JA Castro-Mondragon, C Andrieu-Soler, ... Nature genetics 49 (7), 1073, 2017	217	2017
Transcription factor regulation can be accurately predicted from the presence of target gene signatures in microarray gene expression data A Essaghir, F Toffalini, L Knoops, A Kallin, J van Helden, JB Demoulin Nucleic acids research 38 (11), e120-e120, 2010	214	2010

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