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Christine Sinoquet

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A method combining a random forest-based technique with the modeling of linkage disequilibrium through latent variables, to run multilocus genome-wide association studies

Christine Sinoquet
BMC Bioinformatics, 2018, 19 (1), pp.106. ⟨10.1186/s12859-018-2054-0⟩
Journal articles hal-01984726v1

SMMB: a stochastic Markov blanket framework strategy for epistasis detection in GWAS

Clément Niel , Christine Sinoquet , Christian Dina , Ghislain Rocheleau
Bioinformatics, 2018, 34 (16), pp.2773-2780. ⟨10.1093/bioinformatics/bty154⟩
Journal articles hal-01986668v1
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A survey about methods dedicated to epistasis detection

Clément Niel , Christine Sinoquet , Christian Dina , Ghislain Rocheleau
Frontiers in Genetics, 2015, 6 (Article 285), pp.19. ⟨10.3389/fgene.2015.00285⟩
Journal articles hal-01205577v1

A survey on latent tree models and applications

Raphaël Mourad , Christine Sinoquet , N. Zhang , T. Liu , Philippe Leray
Journal of Artificial Intelligence Research, 2013, 47, pp.157-203. ⟨10.1613/jair.3879⟩
Journal articles hal-00828445v1

Alternative Methods for H1 Simulations in Genome-Wide Association Studies

Vittorio Perduca , Christine Sinoquet , Raphaël Mourad , Gregory Nuel
Human Heredity, 2012, 73 (2), pp.95-104. ⟨10.1159/000336194⟩
Journal articles hal-00686364v1

Probabilistic graphical models for genetic association studies

Raphaël Mourad , Christine Sinoquet , Philippe Leray
Briefings in Bioinformatics, 2012, 13 (1), pp.20-33. ⟨10.1093/bib/BBR015⟩
Journal articles hal-00573325v1

Visualization of pairwise and multilocus linkage disequilibrium structure using latent forests.

Raphaël Mourad , Christine Sinoquet , Christian Dina , Philippe Leray
PLoS ONE, 2011, 6 (12), pp.e27320. ⟨10.1371/journal.pone.0027320⟩
Journal articles hal-00655876v1

A hierarchical Bayesian network approach for linkage disequilibrium modeling and data-dimensionality reduction prior to genome-wide association studies.

Raphaël Mourad , Christine Sinoquet , Philippe Leray
BMC Bioinformatics, 2011, 12 (1), pp.16. ⟨10.1186/1471-2105-12-16⟩
Journal articles hal-00567988v1

Iterative two-pass algorithm for missing data imputation in SNP arrays

Christine Sinoquet
Journal of Bioinformatics and Computational Biology, 2009, 7 (5), pp.833-852. ⟨10.1142/S0219720009004357⟩
Journal articles hal-00423339v1

Temporal constraints of a gene regulatory network: refining a qualitative simulation

Jamil Ahmad , Jérémie Bourdon , Damien Eveillard , Jonathan Fromentin , Olivier Roux
BioSystems, 2009, pp.10.1016/j.biosystems.2009.05.002. ⟨10.1016/j.biosystems.2009.05.002⟩
Journal articles hal-00423353v1

Temporal constraints of a gene regulatory network: Refining a qualitative simulation.

Jamil Ahmad , Jérémie Bourdon , Damien Eveillard , Jonathan Fromentin , Olivier Roux
BioSystems, 2009, 98 (3), pp.149-159. ⟨10.1016/j.biosystems.2009.05.002⟩
Journal articles hal-00415921v1

Large-scale computational and statistical analyses of high transcription potentialities in 32 prokaryotic genomes

Christine Sinoquet , Sylvain Demey , Frédérique Braun
Nucleic Acids Research, 2008, 36 (10), pp.3332-3340. ⟨10.1093/nar/gkn135⟩
Journal articles hal-00423408v1

Maximal sub-triangulation in preprocessing phylogenetic data

Anne Berry , Alain Sigayret , Christine Sinoquet
Soft Computing, 2006, 10 (5), pp.461-468. ⟨10.1007/s00500-005-0507-7⟩
Journal articles hal-00423418v1

Prediction and Inference in a Partially Hidden Markov-switching Framework with Autoregression. Application to Machinery Health Diagnosis.

Fatoumata Dama , Christine Sinoquet
33rd IEEE International Conference on Tools with Artificial Intelligence (ICTAI), IEEE-CS, Nov 2021, virtual event, United States
Conference papers hal-03345260v1

Detection of gene-gene interactions: methodological comparison on real-world data and insights on synergy between methods.

Hugo Boisaubert , Christine Sinoquet
International Joint Conference on Biomedical Engineering Systems and Technologies, BIOSTEC2019, Feb 2019, Prague, Czech Republic. pp.30-42
Conference papers hal-01986665v1

Enhanced ensemble approach to learn Markov blankets for feature subset selection in high-dimensional settings. Illustration with an application to mine genetic data.

Clément Niel , Christine Sinoquet
Cap2018 (French Conference on Machine Learning), Jun 2018, Rouen, France
Conference papers hal-01986670v1

Optimisation par colonie de fourmis pour la sélection de variables par construction stochastique de couverture de Markov - Application pour la médecine de précision.

Clément Niel , Christine Sinoquet
19th edition of the annual congress of the French Society for Operation Research and Decision Assistance, ROADEF2018, Feb 2018, Lorient, France
Conference papers hal-01986671v1

Random forest framework customized to handle highly correlated variables: an extensive experimental study applied to feature selection in genetic data.

Christine Sinoquet , Kamel Mekhnacha
IEEE 5th International Conference on Data Science and Advanced Analytics, DSAA2018, Oct 2018, Turin, Italy. pp.217-226
Conference papers hal-01986653v1

Combining latent tree modeling with a random forest-based approach, for genetic association studies

Christine Sinoquet , Kamel Mekhnacha
26th European Symposium on Artificial Neural Networks, Computational Intelligence and Machine Learning, ESANN2018, Apr 2018, Bruges, Belgium. pp.225-230
Conference papers hal-01984665v1

Ant colony optimization for Markov blanket-based feature selection. Application for precision medicine

Christine Sinoquet , Clément Niel
4th International Conference on Machine Learning, Optimization, and Data Science, LOD2018, Sep 2018, Volterra, Tuscany, Italy. 12 p
Conference papers hal-01986649v1

Enhancement of a stochastic Markov blanket framework with ant colony optimization, to uncover epistasis in genetic association studies.

Christine Sinoquet , Clément Niel
ESANN 2018 - 26th European Symposium on Artificial Neural Networks, Computational Intelligence and Machine Learning, Apr 2018, Bruges, Belgium. pp.673-678
Conference papers hal-01984753v1

Random forests with latent variables to foster feature selection in the context of highly correlated variables. Illustration with a bioinformatics application.

Christine Sinoquet , Kamel Mekhnacha
17th International Symposium on Intelligent Data Analysis, IDA2018, Oct 2018, 's-Hertogenbosch, Netherlands. pp.290-302
Conference papers hal-01986660v1

Impact du choix de la méthode de partitionnement pour les forêts d'arbres latents

Duc-Thanh Phan , Philippe Leray , Christine Sinoquet
SFC2015, P. Kuntz, Sep 2015, Nantes, France. pp.24-27
Conference papers hal-01205544v1

Modeling genetical data with forests of latent trees for applications in association genetics at a large scale. Which clustering method should be chosen?

Duc-Thanh Phan , Philippe Leray , Christine Sinoquet
International Conference on Bioinformatics Models, Methods and Algorithms, Bioinformatics2015, Nov 2014, Lisbon, Portugal. pp.12
Conference papers hal-01084907v1

Modeling of genotype data with forests of latent trees to detect genetic causes of diseases

Christine Sinoquet , Raphaël Mourad , Philippe Leray
Ado2013 (Machine Learning and Omics Data), Dec 2013, Lille, France. 6 p
Conference papers hal-00915538v1

Forests of latent tree models for the detection of genetic associations

Christine Sinoquet , Raphaël Mourad , Philippe Leray
International Conference on Bioinformatics Models, Methods and Algorithms (BIOINFORMATICS 2012), Feb 2012, Vilamoura, Portugal. pp.1-10, ⟨10.5220/0003703400050014⟩
Conference papers hal-00637500v1

Simulation of phenotypes under H1 in genome wide association studies and applications.

Vittorio Perduca , Raphaël Mourad , Christine Sinoquet , Grégory Nuel
Fourth edition of workshop Statistical Methods for Post Genomics Analysis, SMPGD2012, France, Lyon, january 26-27, Jan 2012, Lyon, France
Conference papers hal-00915541v1

Waffect : a method to simulate case-control samples in genome-wide association studies.

Vittorio Perduca , Raphaël Mourad , Christine Sinoquet , Grégory Nuel
43ème édition des journées de la Société Française de Statistique, May 2011, Gammarth, Tunisia
Conference papers hal-00915543v1

Waffect: a method to simulate case-control samples in genome-wide association studies.

Vittorio Perduca , Raphaël Mourad , Christine Sinoquet , Gregory Nuel
JOBIM, Jun 2011, Paris, France. 7 p
Conference papers hal-01986673v1

Learning Hierarchical Bayesian Networks for Genome-Wide Association Studies

Raphaël Mourad , Christine Sinoquet , Philippe Leray
COMPSTAT, Nineteenth International Conference on Computational Statististics, Aug 2010, Paris, France. pp.549-556
Conference papers hal-00484696v1

Hierarchical Bayesian networks applied to association genetics

Raphaël Mourad , Christine Sinoquet , Philippe Leray
MODGRAPH 2010 (Modèles graphiques probabilistes pour l'intégration de données hétérogènes et la découverte de modèles causaux en biologie), Journée satellite de JOBIM 2010, Sep 2010, Montpellier, France
Conference papers hal-00915546v1
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Apprentissage de réseaux bayésiens hiérarchiques latents pour les études d'association pangénomiques

Raphaël Mourad , Christine Sinoquet , Philippe Leray
Proc. JFRB 2010, 5th French-speaking meeting on Bayesian networks, Nantes, May 2010, Nantes, France. pp.11-12
Conference papers hal-00484706v1
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Réseaux bayésiens hiérarchiques avec variables latentes pour la modélisation des dépendances entre SNP: une approche pour les études d'association pangénomiques

Raphaël Mourad , Christine Sinoquet , Philippe Leray
Proc. SFC 2010, XVIIth Join Meeting of the French Society of Classification, France, Saint-Denis de la Réunion, 9-11 june, Jun 2010, Saint-Denis de la Réunion, France. pp.25-29
Conference papers hal-00484705v1

SNPShuttle: bi-directional scan of SNP arrays to gain accuracy in missing genotype inference

Christine Sinoquet
Proc. Seventh Asia-Pacific Bioinformatics Conference, APBC2009, ISBN 978-7-302-19048-6, Jan 2009, Beijing, China. pp.915-925
Conference papers hal-00423431v1

Modélisation des dépendances locales entre SNP à l'aide d'un réseau bayésien

Raphaël Mourad , Christine Sinoquet , Philippe Leray
Proc. SFC'09, XVIth Join Meeting of the French Society of Classification, actes des 16èmes rencontres de la Société Francophone de Classification, Sep 2009, Grenoble, France. pp.169-172
Conference papers hal-00423461v1
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A Bayesian network approach to model local dependencies among SNPs

Raphaël Mourad , Christine Sinoquet , Philippe Leray
MODGRAPH 2009 Probabilistic graphical models for integration of complex data and discovery of causal models in biology, satellite meeting of JOBIM 2009, Jun 2009, Nantes, France
Conference papers hal-00470528v1
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Extending the Hardness of RNA Secondary Structure Comparison

Guillaume Blin , Guillaume Fertin , Irena Rusu , Christine Sinoquet
1st International Symposium on Combinatorics, Algorithms, Probabilistic and Experimental Methodologies (ESCAPE 2007), Apr 2007, Hangzhou, China. pp.140-151
Conference papers hal-00418248v1

A novel approach for structured consensus motif inference under specificity and quorum constraints

Christine Sinoquet
Proc. Fourth Asia-Pacific Bioinformatics Conference, APBC2006, Advances in Bioinformatics and Computational Biology, ISBN 1-86094-623-2, Feb 2006, Taipei, Taiwan. pp.207-216
Conference papers hal-00423435v1

A cooperative strategy dedicated to structured motif discovery in genomic data

Christine Sinoquet
Proc. Fith ALIO-EURO Conference on Combinatorial Optimization, Oct 2005, Paris, France. pp.106-107
Conference papers hal-00423457v1

When chance helps inferring a structured consensus motif from DNA sequences: study of the metaheuristics approach Kaos

Christine Sinoquet
Proc. CompBioNets2005, Algorithms and Computational Methods for Biochemical and Evolutionary Networks, ISBN 1904987311, Dec 2005, Lyon, France. pp.107-132
Conference papers hal-00423436v1

Révélation de motif consensus fonctionnel dans un génome

Christine Sinoquet
FRANCORO IV, International French-speaking Conference on Operational Research, Oct 2004, Fribourg, Switzerland. pp.89-90
Conference papers hal-00423458v1

Maximal sub-triangulation as preprocessing phylogenetic data

Anne Berry , Alain Sigayret , Christine Sinoquet
International Conference Journées de l'Informatique Messine, Sep 2003, Metz, France
Conference papers hal-00522361v1

Maximal sub-triangulation as preprocessing phylogenetic data

Christine Sinoquet
Proc. Fourth International Conference on Knowledge Discovery and Discrete Mathematics, Sep 2003, Metz, France. pp.267-275
Conference papers hal-00423456v1

Reverse translation of amino-acid sequences: a method guided by an n-gram model

Christine Sinoquet
Proc. JOBIM 2000 : Journées Ouvertes pour la Biologie, l'Informatique et les Mathématiques Open workshop for Biology, Computer Science and Mathematics, May 2000, Montpellier, France. pp.343-350
Conference papers hal-00423459v1

Interdépendances nappe-gravières en région Alsace

A. Durbec , Christine Sinoquet , M. Lafont
Forum scientifique «bravo l'eau», 29 mars 1990, au Conseil Général du Haut-Rhin à Colmar, 1990, France. 8 p
Conference papers hal-02609014v1

Machine learning and combinatorial optimization to detect gene-gene interactions in genome-wide real data: looking through the prism of four methods and two protocols

Hugo Boisaubert , Christine Sinoquet
Biomedical Engineering Systems and Technologies, 12th International Joint Conference, BIOSTEC2019, Czech Republic, Prague, 22-24 february, Extended Selected Papers, Communication in Computer and Information Science, A. Fred and H. Gamboa (eds.), Springer, 29 pages, inPress
Book sections hal-02455132v1

Latent Forests to Model Genetical Data for the Purpose of Multilocus Genome-wide Association Studies. Which clustering should be chosen?

Duc-Thanh Phan , Philippe Leray , Christine Sinoquet
Communication in Computer and Information Science, Springer, pp.17, 2015, BIOSTEC2015
Book sections hal-01204956v1

Modeling linkage disequilibrium and performing association studies through probabilistic graphical models: a visiting tour of recent advances.

Christine Sinoquet , Raphaël Mourad
Probabilistic graphical models for genetics, genomics, and postgenomics, Oxford University Press, pp.217-246, 2014
Book sections hal-01168755v1

Essentials to understand probabilistic graphical models: a tutorial about inference and learning.

Christine Sinoquet
Probabilistic graphical models for genetics, genomics, and postgenomics, Oxford University Press, pp.30-82, 2014
Book sections hal-01168741v1

Probabilistic graphical models for next-generation genomics and genetics.

Christine Sinoquet
Oxford University Press. Probabilistic graphical models for genetics, genomics, and postgenomics, , 2014
Book sections hal-01166517v1

Probabilistic graphical modeling in systems biology: a framework for integrative approaches

Christine Sinoquet
A. Prokop and B. Csukas (eds.). Systems Biology : integrative biology and simulation tools, Springer, pp.241-272, 2013, Systems Biology: integrative biology and simulation tools
Book sections hal-01168778v1

Forests of latent tree models to decipher genotype-phenotype associations

Christine Sinoquet , Raphaël Mourad , Philippe Leray
J. Gariel, J. Schier, S. Van Huffel, E. Conchon, C. Correia, A. Fred and H. Gamboa. Biomedical Engineering Systems and Technologies, Communication in Computer and Information Science 357, Springer Berlin Heidelberg, pp.113-134, 2013, 978-3-642-38255-0. ⟨10.1007/978-3-642-38256-7_8⟩
Book sections hal-00915532v1