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Claude Pasquier

Chargé de recherche au CNRS
79%
Libre accès
73
Documents
Affiliations actuelles
  • 13009
Identifiants chercheurs
Site web
  • https://www.i3s.unice.fr/~cpasquie

Présentation

Claude Pasquier is researcher at French National Center for Scientific Research (CNRS). He received a Ph.D. degree in Computer Science from the University of Nice - Sophia Antipolis (now Université Côte d’Azur), France, in 1994. During his thesis, he explored the use of software engineering paradigms in the field of structured document manipulation. He defined both a frame-based language for representing document models, and a system of context-aware document generation and configuration (cf. Prototype-based programming. Subsequently, he was a postdoctoral researcher at the Biophysics and Bioinformatics Laboratory of the University of Athens, Greece, where he conducted research on protein structure prediction. He held positions at the National Institute for Research in Digital Science and Technology (INRIA) and with Schlumberger, Smart Cards & Terminals division (now Gemalto) where he worked on generative programming. Since 2002 when he joined CNRS, he successively worked at Villefranche Oceanographic Laboratory (LOV), the Institute of Biology Valrose (iBV) and New Caledonia Institute of Exact and Applied Sciences (ISEA) where he addressed topics as diverse as semantic data integration, omics data mining and attributed graph mining. Currently at I3S laboratory, he is conducting research focused on complex network mining that combines computer science and systems biology.

Publications

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A network embedding approach to identify active modules in biological interaction networks

Claude Pasquier , Vincent Guerlais , Denis Pallez , Raphaël Rapetti-Mauss , Olivier Soriani
Life Science Alliance, 2023, 6 (9), pp.e202201550. ⟨10.26508/lsa.202201550⟩
Article dans une revue hal-04135439v1
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CELF2 Sustains a Proliferating/OLIG2+ Glioblastoma Cell Phenotype via the Epigenetic Repression of SOX3

Laurent Turchi , Nathalie Sakakini , Gaelle Saviane , Béatrice Polo , Mirca Saras Saurty-Seerunghen
Cancers, 2023, 15 (20), pp.5038. ⟨10.3390/cancers15205038⟩
Article dans une revue hal-04268543v1

Peer Review Report For: Benchmarking graph representation learning algorithms for detecting modules in molecular networks

Claude Pasquier , Nina Singlan
F1000Research, 2023, 12 (941), ⟨10.5256/f1000research.147588.r201155⟩
Article dans une revue hal-04393950v1
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L'essentiel du symposium UCAncer 2021 sur les approches multidisciplinaires de la recherche sur le cancer

Veronique Braud , Frédéric Cazals , Maria Duca , Isabelle Mus-Veteau , Claude Pasquier
Bulletin du Cancer, 2022, 109 (4), pp.505-509. ⟨10.1016/j.bulcan.2022.02.002⟩
Article dans une revue hal-03845837v2
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Persistent Properties of a Subpopulation of Cancer Cells Overexpressing the Hedgehog Receptor Patched

Álvaro Javier Feliz Morel , Anida Hasanovic , Aurélie Morin , Chloé Prunier , Virginie Magnone
Pharmaceutics, 2022, 14 (5), pp.988. ⟨10.3390/pharmaceutics14050988⟩
Article dans une revue hal-03845823v1
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Persistent Properties of a Subpopulation of Cancer Cells Overexpressing the Hedgehog Receptor Patched

Álvaro Javier Feliz Morel , Anida Hasanovic , Aurélie Morin , Chloé Prunier , Virginie Magnone
Pharmaceutics, 2022, 14 (5), pp.988. ⟨10.3390/pharmaceutics14050988⟩
Article dans une revue hal-03842383v1
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Evolutionary Divergence of Phosphorylation to Regulate Interactive Protein Networks in Lower and Higher Species

Claude Pasquier , Alain Robichon
International Journal of Molecular Sciences, 2022, 23 (22), pp.14429. ⟨10.3390/ijms232214429⟩
Article dans une revue hal-03881865v1
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SETMAR Shorter Isoform: A New Prognostic Factor in Glioblastoma

Oriane Lié , Thierry Virolle , Mathieu Gabut , Claude Pasquier , Ilyess Zemmoura
Frontiers in Oncology, 2022, 11, pp.638397. ⟨10.3389/fonc.2021.638397⟩
Article dans une revue hal-03663911v1
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Computational search of hybrid human/SARS-CoV-2 dsRNA reveals unique viral sequences that diverge from those of other coronavirus strains

Claude Pasquier , Alain Robichon
Heliyon, 2021, 7 (6), pp.e07284. ⟨10.1016/j.heliyon.2021.e07284⟩
Article dans une revue hal-03334468v1
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Temporal and sequential order of nonoverlapping gene networks unraveled in mated female Drosophila

Claude Pasquier , Alain Robichon
Life Science Alliance, 2021, 5 (2), pp.e202101119. ⟨10.26508/lsa.202101119⟩
Article dans une revue hal-03556359v1
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Transcriptome-wide-scale-predicted dsRNAs potentially involved in RNA homoeostasis are remarkably excluded from genes with no/very low expression in all developmental stages

Claude Pasquier , Sandra Agnel , Alain Robichon
RNA Biology, 2020, 17 (4), pp.554-570. ⟨10.1080/15476286.2020.1717154⟩
Article dans une revue hal-02508884v1
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Computational prediction of miRNA/mRNA duplexomes at the whole human genome scale reveals functional subnetworks of interacting genes with embedded miRNA annealing motifs

Claude Pasquier , Alain Robichon
Computational Biology and Chemistry, 2020, 88, pp.107366. ⟨10.1016/j.compbiolchem.2020.107366⟩
Article dans une revue hal-02999731v1
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Mining evolutions of complex spatial objects using a single-attributed Directed Acyclic Graph

Frédéric Flouvat , Nazha Selmaoui-Folcher , Jérémy Sanhes , Chengcheng Mu , Claude Pasquier
Knowledge and Information Systems (KAIS), 2020, 62 (10), pp.3931-3971. ⟨10.1007/s10115-020-01478-9⟩
Article dans une revue hal-02909702v1
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Prediction of miRNA-disease Associations using an Evolutionary Tuned Latent Semantic Analysis

Denis Pallez , Julien Gardès , Claude Pasquier
Scientific Reports, 2017, 7, pp.10548. ⟨10.1038/s41598-017-10065-y⟩
Article dans une revue hal-01582170v1
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Attributed graph mining in the presence of automorphism

Claude Pasquier , Frédéric Flouvat , Jérémy Sanhes , Nazha Selmaoui-Folcher
Knowledge and Information Systems (KAIS), 2017, 50 (2), pp.569-584. ⟨10.1007/s10115-016-0953-9⟩
Article dans une revue hal-01311684v1
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The Mapping of Predicted Triplex DNA:RNA in the Drosophila Genome Reveals a Prominent Location in Development- and Morphogenesis-Related Genes

Claude Pasquier , Sandra Agnel , Alain Robichon
G3, 2017, 7 (7), pp.2295 - 2304. ⟨10.1534/g3.117.042911⟩
Article dans une revue hal-01588715v1
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Prediction of miRNA-disease associations with a vector space model

Claude Pasquier , Julien Gardès
Scientific Reports, 2016, 6, pp.27036. ⟨10.1038/srep27036⟩
Article dans une revue hal-01324962v1
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Frequent Pattern Mining in Attributed Trees: algorithms and applications

Claude Pasquier , Jérémy Sanhes , Frédéric Flouvat , Nazha Selmaoui-Folcher
Knowledge and Information Systems (KAIS), 2015, 46 (3), pp.491-514. ⟨10.1007/s10115-015-0831-x⟩
Article dans une revue hal-01154854v1
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Environmentally selected aphid variants in clonality context display differential patterns of methylation in the genome

Claude Pasquier , Mathilde Clément , Aviv Dombrovsky , Stéphanie Penaud , Martine da Rocha
PLoS ONE, 2014, 9 (12), pp.e115022. ⟨10.1371/journal.pone.0115022⟩
Article dans une revue hal-01151509v1
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Mining association rule bases from integrated genomic data and annotations (extended version)

Ricardo Martinez , Nicolas Pasquier , Claude Pasquier
Lecture Notes in Bioinformatics, LNCS 5488, 2009, pp. 
Article dans une revue hal-00361770v1
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Analyse des groupes de gènes co-exprimés (AGGC) : un outil automatique pour l'interprétation de données de biopuces

Ricardo Martinez , Nicolas Pasquier , Claude Pasquier , Martine Collard , Lucero Lopez Perez
Revue des Nouvelles Technologies de l'Information, 2008, 831, pp.263-74
Article dans une revue hal-04413740v1
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Mining gene expression data using domain knowledge

Nicolas Pasquier , Claude Pasquier , Laurent Brisson , Martine Collard
International Journal of Software and Informatics (IJSI), 2008, 2 (2), pp.215-231
Article dans une revue hal-00361427v1
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GenMiner: mining non-redundant association rules from integrated gene expression data and annotations

Ricardo Martinez , Nicolas Pasquier , Claude Pasquier
Bioinformatics, 2008, 24 (22), pp.2643-4. ⟨10.1093/bioinformatics/btn490⟩
Article dans une revue hal-00361418v1
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Biological data integration using Semantic Web technologies

Claude Pasquier
Biochimie, 2008, 90 (4), pp.584-94. ⟨10.1016/j.biochi.2008.02.007⟩
Article dans une revue hal-00362021v1
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Co-expressed Gene Groups Analysis (CGGA): An Automatic Tool for the Interpretation of Microarray Experiments

Ricardo Martinez , Nicolas Pasquier , Claude Pasquier , Martine Collard , Lucero Lopez-Perez
Journal of Integrative Bioinformatics, 2006, 3 (12), pp.1-12. ⟨10.1515/jib-2006-37⟩
Article dans une revue hal-00172501v1
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THEA: ontology-driven analysis of microarray data

Claude Pasquier , Fabrice Girardot , Karim Jevardat de Fombelle , Richard Christen
Bioinformatics, 2004, 20 (16), pp.2636-43. ⟨10.1093/bioinformatics/bth295⟩
Article dans une revue hal-00170450v1
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Evaluation of annotation strategies using an entire genome sequence

Ioannis Iliopoulos , Sophia Tsoka , Miguel Andrade , Anton Enright , Mark Carroll
Bioinformatics, 2003, 19 (6), pp.717-26. ⟨10.1093/bioinformatics/btg077⟩
Article dans une revue hal-00170772v1
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Aspect and XML-oriented Semantic Framework Generator: SmartTools

Isabelle Attali , Carine Courbis , Pascal Degenne , Alexandre Fau , Joël Fillon
Electronic Notes in Theoretical Computer Science, 2002, 65 (3), pp.97-116. ⟨10.1016/S1571-0661(04)80429-8⟩
Article dans une revue hal-00172776v1
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A novel tool for the prediction of transmembrane protein topology based on a statistical analysis of the SwissProt database: the OrienTM algorithm

T D Liakopoulos , Claude Pasquier , S J Hamodrakas
Protein Engineering, 2001, 14 (6), pp.387-90
Article dans une revue hal-01154852v1
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PRED-CLASS: cascading neural networks for generalized protein classification and genome-wide applications

Claude Pasquier , Vasilis Promponas , Stavros Hamodrakas
Proteins - Structure, Function and Bioinformatics, 2001, 44 (3), pp.361-9. ⟨10.1002/prot.1101⟩
Article dans une revue hal-00170747v1
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SmartTools: A Generator of Interactive Environments Tools

Isabelle Attali , Carine Courbis , Pascal Degenne , Alexandre Fau , Didier Parigot
Electronic Notes in Theoretical Computer Science, 2001, 44 (2), pp.225-231. ⟨10.1016/S1571-0661(04)80929-0⟩
Article dans une revue hal-00172773v1
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An hierarchical artificial neural network system for the classification of transmembrane proteins

Claude Pasquier , Stavros Hamodrakas
Protein Engineering, Design and Selection, 1999, 12 (8), pp.631-634
Article dans une revue hal-00170718v3
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A novel method for predicting transmembrane segments in proteins based on a statistical analysis of the SwissProt database: the PRED-TMR algorithm

Claude Pasquier , Vasilis Promponas , Giorgos A. Palaios , J.S Hamodrakas , Stavros J. Hamodrakas
Protein Engineering, Design and Selection, 1999, 12 (5), pp.381-5
Article dans une revue hal-00170724v3
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CoPreTHi: a Web tool which combines transmembrane protein segment prediction methods

Vasilis Promponas , Giorgos Palaios , Claude Pasquier , Ioannis Hamodrakas , Stavros Hamodrakas
In Silico Biology, 1999, 1 (3), pp.159-62
Article dans une revue hal-00170731v3
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A web server to locate periodicities in a sequence

Claude Pasquier , Vassilis Promponas , Nikos Varvayannis , Stavros Hamodrakas
Bioinformatics, 1998, 14 (8), pp.749-50. ⟨10.1093/oxfordjournals.bioinformatics.a011054⟩
Article dans une revue hal-00170781v3
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A machine learning approach to predict weaning outcome among ventilated patients in Intensive Care unit

Romain Lombardi , Mathieu Jozwiak , Jean Dellamonica , Claude Pasquier
Reanimation 2023, the French Intensive Care Society International Congress, Jun 2023, Paris, France. ⟨10.1186/s13613-023-01131-y⟩
Communication dans un congrès hal-04160272v1
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Extending a Fuzzy Polarity Propagation Method for Multi-Domain Sentiment Analysis with Word Embedding and POS Tagging

Claude Pasquier , Célia da Costa Pereira , Andrea G. B. Tettamanzi
ECAI 2020 - 24th European Conference on Artificial Intelligence, Aug 2020, Santiago de Compostela, Spain. pp.2140-2147, ⟨10.3233/FAIA200338⟩
Communication dans un congrès hal-02936130v1
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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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Extraction de motifs dans des graphes orientés attribués en présence d’automorphisme

Claude Pasquier , Frédéric Flouvat , Jérémy Sanhes , Nazha Selmaoui-Folcher
14e Conférence Francophone sur l'Extraction et la Gestion des Connaissances (EGC'14), Jan 2014, Rennes, France
Communication dans un congrès hal-01151511v1
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Les modèles des experts au service de l'extraction de motifs pertinents

Frédéric Flouvat , Jérémy Sanhes , Claude Pasquier , Nazha Selmaoui-Folcher , Jean-François Boulicaut
Reconnaissance de Formes et Intelligence Artificielle (RFIA) 2014, Jun 2014, ROUEN, France
Communication dans un congrès hal-00989223v1
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Improving pattern discovery relevancy by deriving constraints from expert models

Frédéric Flouvat , Jérémy Sanhes , Claude Pasquier , Nazha Selmaoui-Folcher , Jean-François Boulicaut
European Conference on Artificial Intelligence (ECAI'2014), Aug 2014, Prague, Czech Republic. pp.327 - 332, ⟨10.3233/978-1-61499-419-0-327⟩
Communication dans un congrès hal-01151514v1

The Pervasiveness of Machine Learning in Omics Science

Ronnie Alves , Claude Pasquier , Nicolas Pasquier
ECML/PKDD 2014 - International Conference on Machine Learning and Principles and Practice of Knowledge Discovery in Databases Tutorial T3, Sep 2014, Nancy, France
Communication dans un congrès hal-01330594v1
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Frequent Pattern Mining in Attributed trees

Claude Pasquier , Jérémy Sanhes , Frédéric Flouvat , Nazha Selmaoui-Folcher
17th Pacific-Asia Conference on Knowledge Discovery and Data Mining (PAKDD'13), Apr 2013, Gold Coast, Australia. pp.26-37, ⟨10.1007/978-3-642-37453-1_3⟩
Communication dans un congrès hal-01151513v1
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Weighted Path as a Condensed Pattern in a Single Attributed DAG

Jérémy Sanhes , Frédéric Flouvat , Nazha Selmaoui-Folcher , Claude Pasquier , Jean-François Boulicaut
23rd International Joint Conference on Artificial Intelligence (IJCAI'13), Aug 2013, Beijing, China. pp.1642-8
Communication dans un congrès hal-01151561v1
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Extraction de motifs fréquents dans des arbres attribués

Claude Pasquier , Jérémy Sanhes , Frédéric Flouvat , Nazha Selmaoui-Folcher
13e Conférence Francophone sur l'Extraction et la Gestion des Connaissances (EGC'13), Jan 2013, Toulouse, France. pp.193-204
Communication dans un congrès hal-01151512v1
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Extraction de motifs condensés dans un unique graphe orienté acyclique attribué

Jérémy Sanhes , Frédéric Flouvat , Claude Pasquier , Nazha Selmaoui-Folcher , Jean-François Boulicaut
13e Conférence Francophone sur l'Extraction et la Gestion des Connaissances (EGC'13), Jan 2013, Toulouse, France
Communication dans un congrès hal-01151510v1
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Single Document Keyphrase Extraction Using Sentence Clustering and Latent Dirichlet Allocation

Claude Pasquier
5th International Workshop on Semantic Evaluation (SemEval '10), Jul 2010, Uppsala, Sweden. pp.154-157
Communication dans un congrès hal-01151516v1
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Mining association rule bases from integrated genomic data and annotations

Ricardo Martinez , Nicolas Pasquier , Claude Pasquier
Sth International Conference on Computational Intelligence Methods for Bioinformatics and Biostatistics (CIBB'09), Oct 2008, Vietri sul Mare, Salerno, Italy. pp.78-90, ⟨10.1007/978-3-642-02504-4_7⟩
Communication dans un congrès hal-01154860v1
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GenMiner: mining informative association rules from genomic data

Ricardo Martinez , Claude Pasquier , Nicolas Pasquier
IEEE International Conference on Bioinformatics and Biomedicine (BIBM'07), Nov 2007, Fremont, United States. ⟨10.1109/BIBM.2007.49⟩
Communication dans un congrès hal-01154856v1
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Analyse des groupes de gènes co-exprimés (AGGC) : un outil automatique pour l’interpretation des expériences de biopuces

Ricardo Martinez , Nicolas Pasquier , Claude Pasquier , Martine Collard , Lucero Lopez-Perez
13ème Rencontres de la Société Francophone de Classification (SFC’06), Sep 2006, Metz, France
Communication dans un congrès hal-01151505v1
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Interpreting microarray experiments via co-expressed gene groups analysis

Ricardo Martinez , Nicolas Pasquier , Claude Pasquier , Lucero Lopez-Perez
DS'2006 international conference on Discovery Science, Oct 2006, Barcelona, France. pp.316-320, ⟨10.1007/11893318_34⟩
Communication dans un congrès hal-00362761v1

Exploratory analysis of cancer SAGE data

Ricardo Martinez , Richard Christen , Claude Pasquier , Nicolas Pasquier
9th European Conference on Principles and Practice of Knowledge Discovery in Databases (PKDD'05), Discovery Challenge, Oct 2005, Porto, Portugal
Communication dans un congrès hal-01154853v1

Analysis of microarray data with THEA

Claude Pasquier , Richard Christen
Integrative Post-Genomics (IPG'06), Oct 2004, Lyon, France
Communication dans un congrès hal-01151506v1

Distributed BLAST with ProActive

Santosh Anand , Richard Christen , Claude Pasquier
1st Grid PlugTest, ETSI; ProActive User Group, Oct 2004, Sophia Antipolis, France
Communication dans un congrès hal-01151508v1

PRED-CLASS: Bioinformatics software for generalized protein classification and genome-wide applications

Vasilis J Promponas , Claude Pasquier , Stavros J. Hamodrakas
23rd conference of the Hellenic Society for Biological Sciences, May 2001, Chios Island, Greece
Communication dans un congrès hal-04411117v1

SmartTools: A Development Environment Generator based on XML Technologies

Isabelle Attali , Carine Courbis , Pascal Degenne , Alexandre Fau , Joël Fillon
ICSE Workshop on XML Technologies and Software Engineering, May 2001, Toronto, Canada
Communication dans un congrès hal-01151517v1

DAM-BIO: Bioinformatics internet workbench for protein analysis. New modules and applications to biological problems

Theodore Liakopoulos , N. Harkiolakis , Vassilis Promponas , Claude Pasquier , Ioannis Hamodrakas
23rd conference of the Hellenic Society for Biological Sciences, May 2001, Chios, Greece
Communication dans un congrès hal-01152110v1
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A distributed editing environment for XML documents

Claude Pasquier , Laurent Théry
1st ECOOP Workshop on XML and Object Technology, Jun 2000, Sophia Antipolis, France
Communication dans un congrès hal-00362451v1

A workbench for computational analysis of protein sequence and structure on the Internet

Theodore Liakopoulos , Giorgos Palaios , Vasilis Promponas , Ioannis Hamodrakas , Claude Pasquier
22nd Conference of the Hellenic Society for Biological Sciences, May 2000, Skiathos, Greece
Communication dans un congrès hal-01152111v1

PRED-TMR2: An hierarchical neural network to classify proteins as transmembrane and a novel method to predict transmembrane segments

Claude Pasquier , Vassilis Promponas , Giorgos Palaios , Ioannis Hamodrakas , Stavros Hamodrakas
21st conference of the Hellenic Society for Biological Sciences, May 1999, Syros, Greece
Communication dans un congrès hal-01152112v1

OrienTM: A novel method to predict transmembrane protein topology

Theodore Liakopoulos , Claude Pasquier , Stavros Hamodrakas
21st conference of the Hellenic Society for Biological Sciences, May 1999, Syros, Greece
Communication dans un congrès hal-01152113v1

CoPreTHi: a program to combine the results of transmembrane protein segment prediction methods

Vassilis Promponas , Giorgos Palaios , Claude Pasquier , Ioannis Hamodrakas , Stavros Hamodrakas
20th conference of the Hellenic Society for Biological Sciences, May 1998, Samos, Greece
Communication dans un congrès hal-01152115v1

A web interface for FT: a tool dedicated to the study of periodicities in sequences

Claude Pasquier , Vassilis Promponas , Nikos Varvayannis , Stavros Hamodrakas
20th conference of the Hellenic Society for Biological Science, May 1998, Samos, Greece
Communication dans un congrès hal-01152114v1
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BIBLE: a system for Design and Management of Context-Controlled Documents

Claude Pasquier
First International Conference on Principles of Document Processing, 1992, Washington DC, United States
Communication dans un congrès hal-01154855v2

Projet d'utilisation de la norme ODA à la Caisse des Dépôts et Consignations. Échange et génération de documents

Claude Pasquier
colloque Gestion des Documents Electroniques, Dec 1991, Caen, France
Communication dans un congrès hal-01151515v1
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Applying Semantic Web technologies to biological data integration and visualization

Claude Pasquier
Data Management in Semantic Web, pp.131-51, 2012, 978-1-61122-862-5
Chapitre d'ouvrage hal-01151507v1

Gestion et conception de documents structurés par le contexte

Claude Pasquier
Génie logiciel [cs.SE]. Universiré de Nice - Sophia Antipolis, 1994. Français. ⟨NNT : 1994NICE4756⟩
Thèse tel-04408101v1
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Contributions à la fouille de données complexes

Claude Pasquier
Bio-informatique [q-bio.QM]. Université Côte d'Azur, CNRS, I3S, France; École doctorale STIC, 2018
HDR tel-02403790v1