Publications

According to ACM, ArnetMiner, CSB, DBLP, Google Scholar, HAL, OpenAlex, ORCID, Publons, SemanticScholar.

Some presentations of the results of the following publications are available on this page.

International journal articles

• [J20] 2024 : Frédérique Bordignon & Philippe Gambette,
  A Corpus of Critical Citations Contexts,
  JOHD (Journal of Open Humanities Data), 10, article 39 [DOI, données, scripts].
• [J19] 2022 : Simon Gabay, Philippe Gambette, Rachel Bawden, & Benoît Sagot,
  Ancien ou moderne ? Pistes computationnelles pour l’analyse graphématique des textes écrits au XVII^e siècle (Old or Modern? Towards a Computational Graphematic Analysis of 17^th Century French Texts),
  Linx, revue des linguistes de l'Université Paris Ouest Nanterre La Défense, 85, p. 1-20 [DOI].
• [J18] 2022: Olga Seminck, Philippe Gambette, Dominique Legallois & Thierry Poibeau,
  The Evolution of the Idiolect over the Lifetime: A Quantitative and Qualitative Study of French 19th Century Literature,
  Journal of Cultural Analytics, 7(3), p. 1-26 [DOI, scripts and data].
• [J17] 2021: Olga Seminck, Philippe Gambette, Dominique Legallois & Thierry Poibeau,
  The Corpus for Idiolectal Research (CIDRE),
  JOHD (Journal of Open Humanities Data), 7, p. 15 [DOI, data].
• [J16] 2020: Mathilde Bouvel, Philippe Gambette & Marefatollah Mansouri,
  Counting Phylogenetic Networks of Level 1 and 2,
  JOMB (Journal of Mathematical Biology) 81, p. 1357-1395 [DOI].
• [J15] 2018: Philippe Gambette, Andreas Gunawan, Anthony Labarre, Stéphane Vialette & Louxin Zhang,
  Solving the Tree Containment Problem in Linear Time for Nearly Stable Phylogenetic Networks,
  DAM (Discrete Applied Mathematics) 246, p. 62-79 [DOI].
• [J14] 2017: Philippe Gambette, Leo van Iersel, Mark Jones, Manuel Lafond, Fabio Pardi & Celine Scornavacca,
  Rearrangement Moves on Rooted Phylogenetic Networks,
  PLOS Comp Bio (PLOS Computational Biology), 13(8):e1005611, p. 1-21 [DOI].
• [J13] 2017: Philippe Gambette, Katharina Huber & Guillaume Scholz,
  Uprooted phylogenetic networks,
  BMB (Bulletin of Mathematical Biology), 79(9):2022-2048 [DOI].
• [J12] 2017: Annie Glatigny, Philippe Gambette, Alexa Bourand-Plantefol, Geneviève Dujardin, & Marie-Hélène Mucchielli-Giorgi,
  Development of an in silico method for the identification of subcomplexes involved in the biogenesis of multiprotein complexes in Saccharomyces cerevisiae,
  BMC Syst Biol (BMC Systems Biology) 11:67, p. 1-12 [DOI].
• [J11] 2017: Philippe Gambette, Katharina Huber & Steven Kelk,
  On the Challenge of Reconstructing Level-1 Phylogenetic Networks from Triplets and Clusters,
  JOMB (Journal of Mathematical Biology) 74(7), p. 1729–1751. [DOI].
• [J10] 2016: Nadège Lechevrel & Philippe Gambette,
  Une approche textométrique pour étudier la transmission des savoirs biologiques au XIX^e siècle (A Textometrical Approach to Study the Transmission of Biological Knowledge in the XIX^th Century),
  NPSS (Nouvelles perspectives en sciences sociales) 12(1), p. 221-253 [DOI].
• [J9] 2016: Philippe Gambette, Leo van Iersel, Steven Kelk, Fabio Pardi & Celine Scornavacca,
  Do Branch Lengths Help to Locate a Tree in a Phylogenetic Network?,
  BMB (Bulletin of Mathematical Biology) 78(9), p. 1773-1795 [DOI].
• [J8] 2014: Christophe Crespelle & Philippe Gambette,
  (Nearly-)Tight Bounds on the Linearity and Contiguity of Cographs,
  TCS (Theoretical Computer Science) 522, p. 1-12 [DOI].
• [J7] 2013: Lionel Spinelli, Philippe Gambette, Charles E. Chapple, Benoît Robisson, Anaïs Baudot, Henri Garreta, Laurent Tichit, Alain Guénoche & Christine Brun,
  Clust&See: a Cytoscape plugin for the identification, visualization and manipulation of network clusters,
  BioSystems 113(2), p. 91-95 [DOI].
• [J6] 2012: Philippe Gambette & Katharina Huber,
  On Encodings of Phylogenetic Networks of Bounded Level,
  JOMB (Journal of Mathematical Biology) 61(1), p. 157-180 [DOI].
• [J5] 2012: Philippe Gambette, Vincent Berry & Christophe Paul,
  Quartets and Unrooted Phylogenetic Networks,
  JBCB (Journal of Bioinformatics and Computational Biology) 10(4), 1250004 (23 p.) [DOI].
• [J4] 2011: Philippe Gambette & Alain Guénoche,
  Bootstrap Clustering for Graph Partitioning,
  RAIRO-Operations Research 45(4), p. 339-352 [DOI].
• [J3] 2010: Christophe Crespelle & Philippe Gambette,
  Unrestricted and Complete Breadth-First Search of Trapezoid Graphs in O(n) Time,
  IPL (Information Processing Letters) 110, p. 497-502 [DOI].
• [J2] 2009: Daniel Huson, Regula Rupp, Vincent Berry, Philippe Gambette & Christophe Paul,
  Computing Galled Networks from Real Data,
  Bioinformatics 25(12) ISMB/ECCB'09 (Proceedings of the 17^th Annual Conference on Intelligent Systems for Molecular Biology & 8^th European Conference on Computational Biology), p. i85-i93 [DOI].
• [J1] 2008: Philippe Gambette & Daniel H. Huson,
  Improved Layout of Phylogenetic Networks,
  TCBB (IEEE/ACM Transactions on Computational Biology and Bioinformatics) 5(3), p. 472-479 [DOI]. (⇒ Erdős nb 3)

Peer-reviewed international conferences with proceedings

• [C19] 2024 : Pierre Bourhis, Aaron Boussidan, Céline Fournial & Philippe Gambette,
  Detecting semantic or structural similarities for theater play comparison
  JADT'24 (Proceedings of the 17^th International Conference on statistical analysis of textual data), Mots comptés, textes déchiffrés, p. 139-148.
• [C18] 2023 : Pierre Bourhis, Aaron Boussidan & Philippe Gambette,
  On Distances between Words with Parameters
  CPM'23 (Proceedings of the 33^rd Annual Symposium on Combinatorial Pattern Matching), Leibniz International Proceedings in Informatics (LIPIcs), to appear [DOI to be added, supplementary material].
• [C17] 2022: Chuanming Dong, Philippe Gambette & Catherine Dominguès,
  Classifying triggers of industrial pollution events
  JADT'22 (Proceedings of the 16^th International Conference on statistical analysis of textual data), Statistical Analysis of Textual Data, p. 354-360. [URL, script and data].
• [C16] 2022: Simon Gabay, Pedro Ortiz Suarez, Alexandre Bartz, Alix Chagué, Rachel Bawden, Philippe Gambette & Benoît Sagot,
  From FreEM to D'AlemBERT: a Large Corpus and a Language Model for Early Modern French,
  LREC'22 (Proceedings of the 13^th Language Resources and Evaluation Conference), p. 3367-3374, [URL, video, corpus FreEM max].
• [C15] 2022: Rachel Bawden, Jonathan Poinhos, Eleni Kogkitsidou, Philippe Gambette, Benoît Sagot & Simon Gabay,
  Automatic Normalisation of Early Modern French,
  LREC'22 (Proceedings of the 13^th Language Resources and Evaluation Conference), p. 3354-3366, [URL, video, corpus FreEM norm, demo of ABA].
• [C14] 2022: Simon Gabay, Rachel Bawden, Jonathan Poinhos, Philippe Gambette, Eleni Kogkitsidou & Benoît Sagot,
  Le changement linguistique au XVII^e siècle : nouvelles approches scriptométriques,
  CMLF'22 (Actes du 8^e Congrès Mondial de Linguistique Française), SHS Web Conferences, volume 138, p. 02006.1-15, [DOI].
• [C13] 2022: Laurent Bulteau, Philippe Gambette & Olga Seminck,
  Reordering a tree according to an order on its leaves,
  CPM'22 (Proceedings of the 33^rd Annual Symposium on Combinatorial Pattern Matching), Leibniz International Proceedings in Informatics (LIPIcs), volume 223, p. 24.1-15, [DOI, supplementary material].
• [C12] 2021: Chuanming Dong, Philippe Gambette & Catherine Dominguès,
  Extracting event-related information from a corpus regarding soil industrial pollution,
  KDIR'21 (Proceedings of the 13^th International Joint Conference on Knowledge Discovery, Knowledge Engineering and Knowledge Management), volume 1, p. 217-224 [DOI, supplementary material].
• [C11] 2020: Eleni Kogkitsidou & Philippe Gambette,
  Normalisation of 16^th and 17^th century texts in French and geographical named entity recognition,
  SIGSPATIAL GeoHumanities'20 (Proceedings of the 4^th ACM SIGSPATIAL International Workshop on Geospatial Humanities), p. 28-34 [DOI, video].
• [C10] 2018: Christine Barats, Anne Dister, Philippe Gambette, Jean-Marc Leblanc & Marie Peres,
  Appeler à signer une pétition en ligne : caractéristiques linguistiques des appels,
  JADT'18 (Proceedings of the 14^th International Conference on statistical analysis of textual data), Statistical Analysis of Textual Data, p. 68-75 [URL].
• [C9] 2016: Christine Barats, Anne Dister, Philippe Gambette, Jean-Marc Leblanc & Marie Peres-Leblanc,
  Analyser des pétitions en ligne : potentialités et limites d'un dispositif d'étude pluridisciplinaire (Analyzing online petitions: potentialities and limitations of a multidisciplinary study device),
  JADT'16 (Proceedings of the 13^th International Conference on statistical analysis of textual data), Statistical Analysis of Textual Data, p. 772-781 (supplementary material) [URL].
• [C8] 2016: Philippe Gambette, Andreas Gunawan, Anthony Labarre, Stéphane Vialette & Louxin Zhang,
  Solving the Tree Containment Problem for Genetically Stable Networks in Quadratic Time,
  IWOCA'15 (Proceedings of the 26^th International Workshop on Combinatorial Algorithms), LNCS 9538, p. 197-208 [DOI].
• [C7] 2015: Philippe Gambette, Andreas Gunawan, Anthony Labarre, Stéphane Vialette & Louxin Zhang,
  Locating a Tree in A Phylogenetic Network in Quadratic Time,
  RECOMB'15 (Proceedings of the 19^th Annual International Conference on Research in Computational Molecular Biology), LNCS (LNBI) 9029, p. 96-107 [DOI].
• [C6] 2013: Christophe Crespelle & Philippe Gambette,
  Linear-time Constant-ratio Approximation Algorithm and Tight Bounds for the Contiguity of Cographs,
  WALCOM'13 (Proceedings of the 7^th International Workshop on Algorithms and Computation), LNCS 7748, p. 126-136 [DOI].
• [C5] 2010: Delphine Amstutz & Philippe Gambette,
  Utilisation de la visualisation en nuage arboré pour l'analyse littéraire (Using the tree cloud visualization for literature analysis),
  JADT'10 (Proceedings of the 10^th International Conference on statistical analysis of textual data), Statistical Analysis of Textual Data, p. 227-238 (supplementary material) [URL].
• [C2] 2010: Philippe Gambette & Jean Véronis,
  Visualising a Text with a Tree Cloud,
  IFCS'09 (Proceedings of the International Federation of Classification Societies 2009 Conference), Studies in Classification, Data Analysis, and Knowledge Organization 40, p. 561-570 (supplementary material) [DOI].
• [C4] 2009: Christophe Crespelle & Philippe Gambette,
  Efficient Neighbourhood Encoding for Interval Graphs and Permutation Graphs and O(n) Breadth-First Search,
  IWOCA'09 (Proceedings of the 20^th International Workshop on Combinatorial Algorithms), LNCS 5874, p. 146-157 [DOI].
• [C3] 2009: Philippe Gambette, Vincent Berry & Christophe Paul,
  The Structure of Level-k Phylogenetic Networks,
  CPM'09 (Proceedings of the 20^th Annual Symposium on Combinatorial Pattern Matching), LNCS 5577, p. 289-300 [DOI].
• [C1] 2007: Philippe Gambette & Stéphane Vialette,
  On Restrictions of Balanced 2-Interval Graphs,
  WG'07 (Proceedings of the 33^rd International Workshop on Graph-Theoretic Concepts in Computer Science), LNCS 4769, p. 55-65 [DOI].

Peer-reviewed international conferences without proceedings

• [IC1] 2021: Philippe Gambette, Olga Seminck, Dominique Legallois & Thierry Poibeau,
  Evaluating Hierarchical Clustering Methods for Corpora with Chronological Order,
  EADH 2021 (2^nd International Conference of the European Association for Digital Humanities) [video].

Posters

• [P5] 2021: Olga Seminck, Philippe Gambette, Dominique Legallois & Thierry Poibeau,
  The Corpus for Idiolectal Research (CIDRE),
  EADH 2021 poster session (2^nd International Conference of the European Association for Digital Humanities)
• [P3] 2012: Annie Glatigny, Viet-Dung Tran, Philippe Gambette & Marie-Hélène Mucchielli
  An in silico approach to model the assembly pathway of protein respiratory complexes in Saccharomyces cerevisiae,
  JOBIM 2012 poster session.

Dissertations

• [D4] 2010: Méthodes combinatoires de reconstruction de réseaux phylogénétiques (in French, Combinatorial Methods for Phylogenetic Network Reconstruction, summary in English)
  PhD Thesis supervised by Vincent Berry & Christophe Paul at LIRMM. (⇒ grand-grand-grand-grand-grand-grand-grand-grand-grand-son of Lagrange) [a 4 page summary in English].
• [D3] 2006: Les graphes 2-intervallaires (in French, 2-Interval Graphs)
  Master Thesis supervised by Michel Habib at LIAFA.
• [D2] 2005: La représentation des réseaux phylogénétiques (in French, Representation of Phylogenetic Networks)
  Maîtrise Thesis supervised by Daniel Huson at ZBIT, Tübingen University.
• [D1] 2004: Quelques propriétés topologiques des arbres de duplication (in French, Some Topological Properties of Duplication Trees)
  Bachelor Thesis supervised by Olivier Gascuel & Denis Bertrand at LIRMM.

Technical Reports

• 2022: Variations of industrial organisation names in aligned databases related to soil pollution in France (9p, with Chuanming Dong & Catherine Dominguès)
• 2019: Cutting an alignment with Ockham's razor (23p, with Mark Jones, Leo van Iersel, Remie Janssen, Steven Kelk, Fabio Pardi & Celine Scornavacca)
• 2018: The BiodivERsA database: a mapping of research on biodiversity and ecosystem services in Europe over 2005-2015, BiodivERsA report (60p, with Lise Goudeseune, Hilde Eggermont, André Heughebaert & Xavier Le Roux).
• 2016: Who is Who in Phylogenetic Networks: Articles, Authors and Programs (5p, with Tushar Agarwal & David Morrison).
• 2015: Tree Containment in Linear Time for Nested Networks (11p, with Andreas DM Gunawan, Anthony Labarre, Stéphane Vialette & Louxin Zhang).
• 2014: Temporal and geographical trends in the type of biodiversity research funded on a competitive basis in European countries, BiodivERsA report (27p, with Hilde Eggermont & Xavier Le Roux).
• 2009: A Note on Minimum Flip Consensus and Maximum Compatible Subset (2p, complement to [C4]).
• 2008: An Obstruction Approach to Reconstruct Phylogenies and Level-k Networks from Triplets (22p, with Vincent Berry and Christophe Paul).
• 2007: Graphes 2-intervallaires, variantes et restrictions (67p, in French, 2-Interval Graphs, Variants and Restrictions, with Michel Habib & Stéphane Vialette).