Publications

indicates Impact Factor or conference ranking the year of publication

Source for conference ranking is the CORE Conference Portal.

International journals

Pallez D, Gardès J, Pasquier C Prediction of miRNA-disease Associations using an Evolutionary Tuned Latent Semantic Analysis. Scientific Reports 2017, 7(September) 4.259 .

Pasquier C, Agnel S, Robichon A The Mapping of Predicted Triplex DNA:RNA in the Drosophila Genome Reveals a Prominent Location in Development- and Morphogenesis-Related Genes. 2017, 7(July) 3.37 .

Pasquier C, Flouvat F, Sanhes J, Selmaoui-Folcher N Attributed graph mining in the presence of automorphism. Knowledge and Information Systems 2017, 50:569–584 1.782 .

Pasquier C, Gardès J Prediction of miRNA-disease associations with a vector space model. Scientific Reports 2016, 6(June):27036 5.228 .

Pasquier C, Sanhes J, Flouvat F, Selmaoui-Folcher N Frequent pattern mining in attributed trees: algorithms and applications. Knowledge and Information Systems 2016, 46:491–514 2.004 .

Pasquier C, Clément M, Dombrovsky A, Penaud S, Da Rocha M, Rancurel C, Ledger N, Capovilla M, Robichon A Environmentally selected aphid variants in clonality context display differential patterns of methylation in the genome. PloS one 2014, 9:e115022 4.170 .

Martinez R, Pasquier N, Pasquier C Mining Association Rule Bases from Integrated Genomic Data and Annotations (extended version). Lecture Notes in Bioinformatics 2009, 5488:78–90 .

Pasquier N, Pasquier C, Brisson L, Collard M Mining Gene Expression Data using Domain Knowledge. International Journal of Software and Informatics (IJSI) 2008, 2:215–231 .

Martinez R, Pasquier N, Pasquier C GenMiner: mining non-redundant association rules from integrated gene expression data and annotations. Bioinformatics (Oxford, England) 2008, 24:2643–4 4.328 .

Pasquier C Biological data integration using Semantic Web technologies. Biochimie 2008, 90:584–94 3.071 .

Martinez R, Pasquier N, Collard M, Pasquier C, Lopez-Perez L Co-expressed gene groups analysis (CGGA): An automatic tool for the interpretation of microarray experiments. Journal of Integrative Bioinformatics 2006, 3:1–12 .

Pasquier C, Girardot F, Jevardat de Fombelle K, Christen R THEA: ontology-driven analysis of microarray data. Bioinformatics (Oxford, England) 2004, 20:2636–43 5.742 .

Iliopoulos I, Tsoka S, Andrade MA, Enright AJ, Carroll M, Poullet P, Promponas V, Liakopoulos T, Palaios G, Pasquier C, Hamodrakas S, Tamames J, Yagnik AT, Tramontano A, Devos D, Blaschke C, Valencia A, Brett D, Martin D, Leroy C, Rigoutsos I, Sander C, Ouzounis CA Evaluation of annotation strategies using an entire genome sequence. Bioinformatics (Oxford, England) 2003, 19:717–26 6.701 .

Liakopoulos T, Pasquier C, Hamodrakas S A novel tool for the prediction of transmembrane protein topology based on a statistical analysis of the SwissProt database: the OrienTM algorithm. Protein Engineering Design and Selection 2001, 14:387–390 2.718 .

Pasquier C, Promponas V, Hamodrakas S PRED-CLASS: cascading neural networks for generalized protein classification and genome-wide applications. Proteins: Structure, Function, and Bioinformatics 2001, 44:361–9 3.894 .

Pasquier C, Promponas V, Palaios G, Hamodrakas I, Hamodrakas S A novel method for predicting transmembrane segments in proteins based on a statistical analysis of the SwissProt database: the PRED-TMR algorithm. Protein Engineering Design and Selection 1999, 12:381–385 3.209 .

Pasquier C, Hamodrakas S An hierarchical artificial neural network system for the classification of transmembrane proteins. Protein Engineering Design and Selection 1999, 12:631–634 3.209 .

Promponas V, Palaios G, Pasquier C, Hamodrakas I, Hamodrakas S CoPreTHi: a Web tool which combines transmembrane protein segment prediction methods. In silico biology 1999, 1:159–62 .

Pasquier C, Promponas V, Varvayannis N, Hamodrakas S A web server to locate periodicities in a sequence. Bioinformatics 1998, 14:749–50 2.259 .

International Conferences

Flouvat F, Sanhes J, Pasquier C, Selmaoui-folcher N, Boulicaut J-F Improving pattern discovery relevancy by deriving constraints from expert models. In European conference on artificial intelligence (ecai’14). Prague; 2014 A .

Pasquier C, Sanhes J, Flouvat F, Selmaoui-Folcher N Frequent Pattern Mining in Attributed trees. In J pei et al (eds): PAKDD 2013, part i, lnai 7818, pp 26–37 springer, heidelberg (2013). Gold Coast; 2013:26–37 A .

Sanhes J, Flouvat F, Pasquier C, Selmaoui-Folcher N, Boulicaut J-F Weighted Path as a Condensed Pattern in a Single Attributed DAG. In 23rd international joint conference on artificial intelligence (ijcai’13). Beijing; 2013:1642–8 A* .

Pasquier C Single Document Keyphrase Extraction Using Sentence Clustering and Latent Dirichlet Allocation. In 5th international workshop on semantic evaluation. Uppsala: Association for Computational Linguistics; 2010:154–157 .

Martinez R, Pasquier N, Pasquier C Mining Association Rule Bases from Integrated Genomic Data and Annotations. In 5th international conference on computational intelligence methods for bioinformatics and biostatistics (cibb’08). Edited by Berlin S. Vietri sul Mare, Salerno, Italy; 2008:33–43 .

Martinez R, Pasquier C, Pasquier N GenMiner: Mining Informative Association Rules from Genomic Data. In IEEE international conference on bioinformatics and biomedicine (bibm’07). Fremont, Silicon Valley, CA: IEEE; 2007:15–22 .

Martinez R, Pasquier N, Pasquier C, Lopez-Perez L Interpreting microarray experiments via co-expressed gene groups analysis. In 9th international conference of discovery science (icds’06) lecture notes in computer science. Volume 4265. Barcelona: Springer Berlin Heidelberg; 2006:316–320 B .

Martinez R, Christen R, Pasquier C, Pasquier N Exploratory Analysis of Cancer SAGE Data. In 9th european conferences on principles and practice of knowledge discovery in databases (pkdd’05), discovery challenge. Porto, Portugal; 2005 A .

Anand S, Christen R, Pasquier C Distributed BLAST with ProActive. In 1st grid plugtest etsi headquarters proactive user group. Sophia Antipolis; 2005.

Pasquier C, Christen R Analysis of microarray data with THEA. In Lyon’s international multidisciplinary meeting on post-genomics (ipg’04). La Doua, Lyon; 2004.

Parigot D, Courbis C, Degenne P, Fau A, Pasquier C, Fillon J, Held C, Attali I Aspect and XML-oriented Semantic Framework Generator : Smarttools. 2nd Workshop on Language Descriptions, Tools and Applications LDTA’02, (Satellite Event of ETAPS’02), Electronic Notes in Theoretical Computer Science, Elsevier 2002, 65:97–116 .

Attali I, Courbis C, Degenne P, Fau A, Fillon J, Parigot D, Pasquier C, Sacerdoti Cohen C SmartTools: A Development Environment Generator based on XML Technologies. In XML technologies and software engineering (xse’01), icse’01, workshop proceedings. Toronto; 2001 .

Attali I, Courbis C, Degenne P, Fau A, Parigot D, Pasquier C SmartTools: A Generator of Interactive Environments Tools. 10th International Conference on Compiler Construction (CC’01): Held as Part of the Joint European Conferences on Theory and Practice of Software (ETAPS 2001), Electronic Notes in Theoretical Computer Science, Elsevier 2001, 44:355–360 A .

Pasquier C, Théry L A Distributed Editing Environment for XML Documents. In First ecoop workshop on xml and object technology (xot’00). Sophia-Antipolis; 2000 .

Pasquier C BIBLE: a system for Design and Management of Context-Controlled Documents. In First international conference on principles of document processing (podp’92). Washington D. C. 1992.

Book Chapters

Pasquier C Applying Semantic Web technologies to biological data integration and visualization. In Data management in semantic web. Edited by Jin H, Zehua L. Nova Science Publishers, Inc. 2011:131–151.

National journals

Martinez R, Pasquier N, Pasquier C, Collard M, Lopez-Perez L Analyse des groupes de gènes co-exprimés: un outil automatique pour l’interprétation des expériences de biopuces (version étendue). Revue des Nouvelles Technologies de l’Information (RNTI-C-2), Classification : points de vue croisés 2008, 831:263–74 .

National Conferences

Flouvat F, Sanhes J, Pasquier C, Selmaoui-Folcher N, Boulicaut J-F Les modèles des experts au service de l’extraction de motifs pertinents. In 19ème congrès sur la reconnaissance de formes et l’Intelligence artificielle (rfia’14). Rouen; 2014 .

Pasquier C, Flouvat F, Sanhes J, Selmaoui-folcher N Extraction de motifs dans des graphes orientés attribués en présence d’automorphisme. In 14e conférence francophone sur l’Extraction et la gestion des connaissances (egc’14), revue des nouvelles technologies de l’Information, volume e-26. Rennes; 2014:371–382 .

Pasquier C, Sanhes J, Flouvat F, Selmaoui-Folcher N Extraction de motifs fréquents dans des arbres attribués. In 13e conférence francophone sur l’Extraction et la gestion des connaissances (egc’13), revue des nouvelles technologies de l’Information, volume e-24. Toulouse; 2013:193–204 . (Best academic paper award)

Sanhes J, Flouvat F, Pasquier C, Selmaoui-Folcher N, Boulicaut J-F Extraction de motifs condensés dans un unique graphe orienté acyclique attribué. In 13ème conférence francophone sur l’Extraction et la gestion des connaissances (egc’13), revue des nouvelles technologies de l’Information, volume e-24. Toulouse; 2013 .

Martinez R, Pasquier N, Pasquier C, Collard M, Lopez-Perez L Analyse des groupes de gènes co-exprimés (AGGC): un outil automatique pour l’interprétation des expériences de biopuces. In 13ème rencontres de la société francophone de classification (sfc’06). Edited by Cépaduès Editions. Metz; 2006:267–276 .

Liakopoulos T, Harkiolakis N, Promponas V, Pasquier C, Hamodrakas I, Papandreou N, Iconomidou V, Papandreou N, Tzafestas E, Tzafestas S, Eliopoulos E, Hamodrakas S DAM-BIO: Bioinformatics internet workbench for protein analysis. New modules and applications to biological problems. In 23rd conference of the hellenic society for biological sciences. Chios island; 2001.

Liakopoulos T, Palaios G, Promponas V, Hamodrakas I, Pasquier C, Hamodrakas S A workbench for computational analysis of protein sequence and structure on the Internet. In Proceedings of the 22nd conference of the hellenic society for biological sciences. Skiathos island; 2000.

Pasquier C, Promponas V, Palaios G, Hamodrakas I, Hamodrakas S PRED-TMR2: An hierarchical neural network to classify proteins as transmembrane and a novel method to predict transmembrane segments. In Proceedings of the 21st conference of the hellenic society for biological sciences. Galissas, Syros island; 1999.

Liakopoulos T, Pasquier C, Hamodrakas S OrienTM: A novel method to predict transmembrane protein topology. In 21st conference of the hellenic society for biological sciences. Galissas, Syros island; 1999.

Pasquier C, Promponas V, Varvayannis N, Hamodrakas S A web interface for FT: a tool dedicated to the study of periodicities in sequences. In 20th conference of the hellenic society for biological science. Samos Island; 1998.

Promponas V, Palaios G, Pasquier C, Hamodrakas I, Hamodrakas S CoPreTHi: a program to combine the results of transmembrane protein segment prediction methods. In 20th conference of the hellenic society for biological sciences. Samos Island; 1998.

Pasquier C Projet d’utilisation de la norme ODA à la Caisse des Dépôts et Consignations. Échange et génération de documents. In Colloque gestion des documents electroniques. Edited by (SEPT) Sd communes de LP et de FT. Caen; 1991.

PhD

Pasquier C Gestion et conception de documents structurés par le contexte. PhD Thesis. University of Nice - Sophia Antipolis; 1994.