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R{NA} secondary structure comparison: exact analysis of the {Z}hang-{S}hasha tree edit algorithm

 Serge Dulucq , Laurent Tichit
Theoretical Computer Science, 2003, 306, pp.471--484
Article dans une revue hal-00307518v1
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Inferring cell cycle phases from a partially temporal network of protein interactions

 Maxime Lucas , Arthur Morris , Alex Townsend-Teague , Laurent Tichit , Bianca Habermann , et al.
Cell Reports Methods, 2023, 3 (2), pp.100397. ⟨10.1016/j.crmeth.2023.100397⟩
Article dans une revue hal-04144618v1
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Prediction of Disease-associated Genes by advanced Random Walk with Restart on Multiplex and Heterogeneous Biological Networks

 Alberto Valdeolivas , Élisabeth Remy , Laurent Tichit , Gaëlle Odelin , Claire Navarro , et al.
JOBIM 2017, Jul 2017, Lille, France
Communication dans un congrès hal-03582849v1
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Designing optimal-and fast-on-average pattern matching algorithms

 Gilles Didier , Laurent Tichit
Journal of Discrete Algorithms, 2017, 42, pp.45-60
Article dans une revue hal-01310165v1
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Assessment of network module identification across complex diseases

 Sarvenaz Choobdar , Mehmet Ahsen , Jake Crawford , Mattia Tomasoni , Tao Fang , et al.
Nature Methods, 2019, 16 (9), pp.843-852. ⟨10.1038/s41592-019-0509-5⟩
Article dans une revue hal-02333148v1
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A Comprehensive Analysis of Gene Expression Changes Provoked by Bacterial and Fungal Infection in C. elegans

 Ilka Engelmann , Aurelien Griffon , Laurent Tichit , Fr Montañana-Sanchis , Guilin Wang , et al.
PLoS ONE, 2011, ⟨10.1371/journal.pone.0019055⟩
Article dans une revue hal-01261853v1
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Dispersion sémantique dans des familles morpho-phonologiques : éléments théoriques et empiriques

 Núria Gala , Véronique Rey , Laurent Tichit
Traitement Automatique des Langues (TALN 2009), Jun 2009, Senlis, France
Communication dans un congrès hal-03198420v1
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MultiVERSE: a multiplex and multiplex-heterogeneous network embedding approach

 Léo Pio-Lopez , Alberto Valdeolivas , Laurent Tichit , Élisabeth Remy , Anaïs Baudot
Scientific Reports, 2021, 11 (1), ⟨10.1038/s41598-021-87987-1⟩
Article dans une revue hal-03359094v2
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Introducing the novel Cytoscape app TimeNexus to analyze time-series data using temporal MultiLayer Networks (tMLNs)

 Michaël Pierrelée , Ana Reynders , Fabrice Lopez , Aziz Moqrich , Laurent Tichit , et al.
Scientific Reports, 2021, 11 (1), ⟨10.1038/s41598-021-93128-5⟩
Article dans une revue hal-03358832v1
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An integrated analysis tool reveals intrinsic biases in gene set enrichment

 Nishant Thakur , Nathalie Pujol , Jacques van Helden , Robert H Waterston , Ladeana W. Hillier , et al.
2021
Pré-publication, Document de travail hal-03374674v1
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About the largest subtree common to several phylogenetic trees

 Laurent Tichit , Alain Guénoche , Henri Garreta
Applied Stochastic Models and Data Analysis ASMDA 2009: 13th International Conference, June 2009, Vilnius, Lithuania, Applied Stochastic Models and Data Analysis International Society (ASMDA), Jun 2009, Vilnius, Lithuania
Communication dans un congrès hal-04145048v1
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Random walk with restart on multiplex and heterogeneous biological networks

 Alberto Valdeolivas , Laurent Tichit , Claire L. Navarro , Sophie Perrin , Gaelle Odelin , et al.
Bioinformatics, 2019, ⟨10.1101/134734⟩
Article dans une revue hal-01946427v1
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Local Similarity Between Quotiented Ordered Trees

 Pascal Ferraro , Aïda Ouangraoua , Laurent Tichit , Serge Dulucq
Journal of Discrete Algorithms, 2007, 5 (1), pp.23-35
Article dans une revue hal-00307119v1
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Clone Mapper: An Online Suite of Tools for RNAi Experiments in Caenorhabditis elegans

 Nishant Thakur , Nathalie Pujol , Laurent Tichit , Jonathan J. Ewbank
G3, 2014, G3 (Bethesda), 4 (11), pp.2137-45. ⟨10.1534/g3.114.013052⟩
Article dans une revue hal-01261841v1
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A quantitative genome-wide RNAi screen in C. elegans for antifungal innate immunity genes

 Olivier Zugasti , Nishant Thakur , Jerome Belougne , Barbara Squiban , C. Léopold Kurz , et al.
BMC Biology, 2016, 14, ⟨10.1186/s12915-016-0256-3⟩
Article dans une revue hal-01438537v1
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About the largest subtree common to several X-trees

 Alain Guénoche , Henri Garreta , Laurent Tichit
Mathématiques et Sciences Humaines, 2010, Mathématiques discrètes : théories et usages. Numéro en hommage à Bruno Leclerc, 190, pp.115-124. ⟨10.4000/msh.11751⟩
Article dans une revue hal-04145727v1
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Analysis of a logical regulatory network reveals how Fe-S cluster biogenesis is controlled in the face of stress

 Firas Hammami , Laurent Tichit , Béatrice Py , Frédéric Barras , Pierre Mandin , et al.
microLife, 2023, 4, ⟨10.1093/femsml/uqad003⟩
Article dans une revue hal-04144637v1

An Integrative Database of β-Lactamase Enzymes: Sequences, Structures, Functions, and Phylogenetic Trees

 Vivek Keshri , Seydina Diene , Adrien Estienne , Justine Dardaillon , Olivier Chabrol , et al.
Antimicrobial Agents and Chemotherapy, 2019, 63 (5), ⟨10.1128/AAC.02319-18⟩
Article dans une revue hal-02159541v1

Local Similarity Between Trees

 Pascal Ferraro , Laurent Tichit , Serge Dulucq
Actes des 5ème Journées Ouvertes Biologie Informatique Mathématiques, Jun 2004, Montreal, Canada. pp.19
Communication dans un congrès hal-00306628v1
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Population-based meta-heuristic for active modules identification

 Leandro Corrêa , Denis Pallez , Laurent Tichit , Olivier Soriani , Claude Pasquier
10th International Conference on Computational Systems-Biology and Bioinformatics (CSBio 2019), Dec 2019, Nice, France. pp.1-8, ⟨10.1145/3365953.3365957⟩
Communication dans un congrès hal-02366236v1
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A multi-objective genetic algorithm to find active modules in multiplex biological networks

 Elva-María Novoa-Del-Toro , Efrén Mezura-Montes , Matthieu Vignes , Morgane Térézol , Frédérique Magdinier , et al.
PLoS Computational Biology, 2021, 17 (8), pp.e1009263. ⟨10.1371/journal.pcbi.1009263⟩
Article dans une revue hal-03372492v1
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ClusterInspector: a tool to visualize ontology-based relationships between biological entities

 Sèverine Bérard , Laurent Tichit , Carl Herrmann
Les Journées Ouvertes en Biologie, Informatique et Mathématiques Actes de {JOBIM}' 2005, Jul 2005, Lyon, France
Communication dans un congrès hal-04145768v1
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A Multi-Objective Genetic Algorithm to Find Active Modules in Multiplex Biological Networks

 Elva-María Novoa-Del-Toro , Efrén Mezura-Montes , Matthieu Vignes , Frédérique Magdinier , Laurent Tichit , et al.
2020
Pré-publication, Document de travail hal-02997031v1
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Clone Mapper: An Online Suite of Tools for RNAi Experiments in Caenorhabditis elegans

 Nishant Thakur , Nathalie Pujol , Laurent Tichit , Jonathan J. Ewbank
G3, 2014, 4, pp.2137-2145. ⟨10.1534/g3.114.013052⟩
Article dans une revue hal-01243281v1
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Clust&See: A Cytoscape plugin for the identification, visualization and manipulation of network clusters

 Lionel Spinelli , Philippe Gambette , Charles E. Chapple , Benoît Robisson , Anaïs Baudot , et al.
BioSystems, 2013, 113 (2), pp.91-93. ⟨10.1016/j.biosystems.2013.05.010⟩
Article dans une revue hal-00832028v2

ICeE an interface for C. elegans experiments

 Fr Montanana , Julien Renaud , Philippe Vaglio , Lisa Matthews , Laurent Tichit , et al.
Worm, 2014, 3 (3), ⟨10.4161/21624046.2014.959420⟩
Article dans une revue hal-01261848v1

SimCT: a generic tool to visualize ontology-based relationships for biological objects.

 Carl Herrmann , Sèverine Bérard , Laurent Tichit
Bioinformatics, 2009, 25 (23), pp.3197-8. ⟨10.1093/bioinformatics/btp553⟩
Article dans une revue halsde-00454253v1
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ModClust: a Cytoscape plugin for modularity-based clustering of networks

 Laurent Tichit , Philippe Gambette , Alain Guénoche
MARAMI 2011, Oct 2011, Grenoble, France
Communication dans un congrès hal-01261856v1
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Logical modelling of cellular decision processes with GINsim

 Claudine Chaouiya , Aurélien Naldi , Lionel Spinelli , Pedro Monteiro , Duncan Berenguier , et al.
JOBIM 2012, Jul 2012, Rennes, France
Communication dans un congrès hal-01261855v1
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Dynamical modeling and analysis of large cellular regulatory networks

 D Bérenguier , Claudine Chaouiya , Pedro T. Monteiro , A Naldi , Élisabeth Remy , et al.
Chaos: An Interdisciplinary Journal of Nonlinear Science, 2013, 23 (2), ⟨10.1063/1.4809783⟩
Article dans une revue hal-01261849v1
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