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BiGRe former lab members
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Shoshana J. Wodak PhD, Professor Lab director until 2006 Email: shoshana(at)sickkids.ca |
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Former PhD students and researchers
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Gipsi Lima Mendez Master student Sept 2003- Sept 2004. PhD student Sept 2004 - Jan 2008. Postdoc Jan 2008- Jan 2010. Email: gipsi(at)bigre.ulb.ac.be Room number: 105 Tel: +32 2 650 5499 |
Research: Prediction and classification of mobile genetic elements. Analysis of signal transduction pathways. |
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Karoline Faust PhD student Dec 2005-Jan 2010 Email: kfaust(at)ulb.ac.be Homepage Room number: 110 Tel: +32 2 650 5466 |
Research: Path finding in metabolic networks (see Pathfinder in NeAT). Analysis of microarray data. Inference of metabolic pathways from clusters of co-expressed genes. |
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Jean-Valéry Turatsinze PhD student 2006-2009 Email: jturatsi(at)ulb.ac.be Homepage Room number: 102 Tel: +32 2 650 2076 |
Research: Analysis of regulatory sequences in multicellular organisms (Human, Drosophila). Development and evaluation of matrix-based pattern matching methods (matrix-scan and related programs in RSAT). Application of these methods to analyze the regulation of the Achaete-Scute complex in Drosophila. |
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Olivier Sand Postdoc 2003 - 2009 Email: oly(at)bigre.ulb.ac.be Homepage Room number: 102 Tel: +32 2 650 2076 |
Research: Analysis of regulatory sequences. Quantitative assessment of the accuracy of pattern discovery approaches in various model organisms. Pattern discovery in sequence sets obtained from ChIP-on-chip data. |
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Matthieu Defrance Postdoc Sept 2007- May 2009 Email: defrance(at)bigre.ulb.ac.be Homepage Room number: 102 Tel: +32 2 650 2076 |
Research: Devlopment of motif discovery algorithms combining detection of exceptional words with optimization strategies (gibbs sampling, genetic algorithms, ...). |
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Morgane Thomas-Chollier PhD student 2005-2008 Postdoc 2008-2009 Email: morgane(at)bigre.ulb.ac.be Homepage Room number: 102 Tel: +32 2 650 2076 |
Research: Study of the Hox multigenic family. Development of HoxPred: an automated classification procedure to assign Hox proteins to their homology groups. Matrix-based pattern matching to predict putative binding sites of these factors in the genomes of higher eukaryotes. |
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Sylvain Brohée PhD student 2005-2008 Email: sbrohee(at)ulb.ac.be Homepage Room number: 109 Tel: +32 2 650 5434 |
Research: Networks of interactions between membrane proteins. Statistical analysis of high-throughput data (split-ubiquitin, mass spectrometry); detection of functional modules by application of graph-based clustering methods; supervised classification. |
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Rekin's Janky PhD 2004-2007 Email: rekins(at)bigre.ulb.ac.be Homepage |
Research: Evolution of transcriptional regulation in prokaryotes. Prediction of operons, detection of conserved elements in promoter regions (phylogenetic footprints), inference of co-regulation networks from phylogenetic footprints. |
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Fadi Abdel Sater Postdoc shared time with the Laboratoire de Physiologie de la Cellule Email: fabdelsa(at)ulb.ac.be |
Research: bioinformatics predictions and experimental validation of regulatory elements in the yeast Saccharomyces cerevisiae. |
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Romain Daveau PhD student at the Université de Rouen (2004-2008). Guest for the development of the software tool Odegat. Email: romain_daveau(at)yahoo.fr |
Research: development of methods for the prognostic and diagnostic of self-inflammatory diseases. |
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Fernanda L. Sirota PhD 2003-2007 Email: fernanda(at)bigre.ulb.ac.be |
Research: Molecular modeling and dynamics of the sodium channel inactivation gate. |
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Raul Mendez PhD 2003-2007 Email: raul(at)bigre.ulb.ac.be |
Research: assessment of predictions for protein-ligand interactions. Development of methods for evaluating the quality of such predictions. Application of these methods in the CAPRI assessment. |
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Benoît Dessailly PhD 2003-2007 Email: benoit(at)bigre.ulb.ac.be |
Research: Developing a method for detection of functionally important sites on proteins of known structure, based upon contributions of residues to the stability of the protein. |
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Didier Croes PhD 2001-2006 Email: didier(at)bigre.ulb.ac.be Homepage |
Research: Development and evaluation of methods for infering metabolic pathways by path finding in metabolic networks. The metabolic pathfinder is available here. |
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Nicolas Simonis PhD 2002-2005 Email: nicolas(at)bigre.ulb.ac.be |
Research: Analysis of the regulation of protein complexes in the yeast. Development of methods for classifying promoters on the basis of regulatory patterns. |
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Joseph Tran PhD |
Research: inference of metabolic pathways from clusters of co-expressed enzymes. |
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Cédric Govaert PhD 1998-2001 |
Research: Study of the activation mechanisms of G-protein coupled receptors using molecular modeling. |
Research fellows
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Eric Vervisch Research fellow 2007-2008 Email: eric.vervisch(at)gmail.com Room number: 102 Tel: +32 2 650 2076 |
Research: Design of Taverna workflows for the analysis of gene regulation and molecular networks. |
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aMAZE team
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Jean Richelle aMAZE Project coordinator Email: jean.richelle(at)ulb.ac.be |
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Christian Lemer Software development coordinator |
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Olivier Hubaut Database Administration |
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Fabian Couche Developer |
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Simon de Keyzer Developer |
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Frédéric Fays Developer |
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Hassan Anerhour Annotator Email: hassan(at)bigre.ulb.ac.be |
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Xavier Santolaria System administrator |
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Erick Antezana Developer |
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Jesintha Mary Maniraja Annotator |
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Former master students
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Maud Vidick Mémoire de licence en mathématiques 2007-2008 Email: mvidick(at)ulb.ac.be |
Research: Statistics for the classification of DNA sequences on the basis of pattern counts (in co-direction with Prof. Guy Latouche, Dept. Informatics). |
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Nicolas Rosewick Mémoire de Master en Bioinformatique et Modélisation 2008-2009 Email: nrosewic(at)ulb.ac.be Homepage |
Research: Development of multi-level layout algorithms for biomolecular networks. |
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Rossy Gabin Nkoubouala Mémoire de DEA en biologie moléculaire 2007-2008 Email: rnkoubou(at)ulb.ac.be |
Research: detection of cis-acting elements in phage genomes. |
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Youssef El Fattahi Mémoire de DEA en biologie moléculaire 2007-2008 |
Research:Etude de l'évolution de la régulation transcriptionnelle des gènes impliqués dans le métabolisme du phosphate et de la méthionine chez les levures.. |
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Khatib Massaaoudi DEA en bioinformatique 2006-2007 |
Research: Proprieétés statistiques du voisinage des noeuds dans un graphe - Application au réseau de transduction de signal TransPath |
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Grégory Gathy DEA en bioinformatique 2006-2007 |
Research: Evaluation de stratégies d'optimisation et de scores alternatifs pour le Gibbs sampler |
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Gilles Vanderstocken DEA en bioinformatique 2006-2007 |
Research: Evaluation des réseaux de co-régulation inférés à partir d'empreintes phylogénétiques |
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Alexandre Lutumba DEA en bioinformatique 2006-2007 |
Research: Prédiction de motifs de fixation de facteurs transcriptionnels par l'analyse des promoteurs de tous les gènes triés sur base de données ChIP-chip |
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Theodoros Petidis DEA en bioinformatique 2005-2006 |
Research: Programmatic interfaces for the ACLAME databases |
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Ahmed Essaghir DEA en bioinformatique 2004-2005 |
Research: Detection of regulatory signals from clusters of co-expressed genes in plasmodium falciparum |
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Mehdi Jbel DEA en bioinformatique 2004-2005 |
Research: Evolution de la régulation azotée dans les génomes bactériens |
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Raymond Kalimunda DEA en bioinformatique 2004-2005 |
Research: Approches algorithmiques pour l'assemblage de motifs séquentiels |
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Pierre Jonniaux DEA en bioinformatique 2003-2004 |
Research: Evolution des séquences régulatrices de levure |
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Hassan Ghazal DEA en bioinformatique 2001-2002 |
Research: Analyse de la régulation des gènes exprimés spécifiquement dans le pollen |
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Patrice Chagnau DEA en bioinformatique 2000-2001 |
Research: Prédiction génomique de gènes régulés par l'azote |
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Magali Lescot DEA en bioinformatique 2000-2001 |
Research: Analyse des séquences régulatrices d'Arabidopsis thaliana |