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28

Publications HAL Sèverine Bérard (mars 2022)


Journal articles14 documents

  • Robert Waterhouse, Sergey Aganezov, Yoann Anselmetti, Jiyoung Lee, Livio Ruzzante, et al.. Evolutionary superscaffolding and chromosome anchoring to improve Anopheles genome assemblies. BMC Biology, BioMed Central, 2020, 18 (1), pp.1-20. ⟨10.1186/s12915-019-0728-3⟩. ⟨hal-02455139⟩
  • Lisa de Mattéo, Yan Holtz, Vincent Ranwez, Sèverine Bérard. Efficient algorithms for Longest Common Subsequence of two bucket orders to speed up pairwise genetic map comparison. PLoS ONE, Public Library of Science, 2018, 13 (12), pp.e0208838. ⟨10.1371/journal.pone.0208838⟩. ⟨hal-02134202⟩
  • Yoann Anselmetti, Wandrille Duchemin, Eric Tannier, Cedric Chauve, Sèverine Bérard. Phylogenetic signal from rearrangements in 18 Anopheles species by joint scaffolding extant and ancestral genomes. BMC Genomics, BioMed Central, 2018, 19 (S2), pp.1-15. ⟨10.1186/s12864-018-4466-7⟩. ⟨hal-01791884⟩
  • Wandrille Duchemin, Yoann Anselmetti, Murray Patterson, Yann Ponty, Sèverine Bérard, et al.. DeCoSTAR: Reconstructing the ancestral organization of genes or genomes using reconciled phylogenies. Genome Biology and Evolution, Society for Molecular Biology and Evolution, 2017, 9 (5), pp.1312-1319. ⟨10.1093/gbe/evx069⟩. ⟨hal-01503766v2⟩
  • Sèverine Bérard, Annie Chateau, Nicolas Pompidor, Paul Guertin, Anne Bergeron, et al.. Aligning the unalignable: bacteriophage whole genome alignments. BMC Bioinformatics, BioMed Central, 2016, 17 (1), pp.30-43. ⟨10.1186/s12859-015-0869-5⟩. ⟨lirmm-01275670⟩
  • Yoann Anselmetti, Vincent Berry, Cedric Chauve, Annie Chateau, Eric Tannier, et al.. Ancestral gene synteny reconstruction improves extant species scaffolding. BMC Genomics, BioMed Central, 2015, 16 (Suppl 10), pp.S11. ⟨10.1186/1471-2164-16-S10-S11⟩. ⟨hal-01180303v2⟩
  • Sèverine Bérard, Coralie Gallien, Bastien Boussau, Gergely J Szöllosi, Vincent Daubin, et al.. Evolution of gene neighborhoods within reconciled phylogenies. Bioinformatics, Oxford University Press (OUP), 2012, 28 (18), pp.i382-i388. ⟨10.1093/bioinformatics/bts374⟩. ⟨hal-00733178⟩
  • Cédric Gaucherel, Sèverine Bérard, François Munoz. Equation or algorithm: differences and choosing between them. Acta Biotheoretica, Springer Verlag, 2011, 59 (1), pp.67-79. ⟨10.1007/s10441-010-9119-4⟩. ⟨halsde-00611729⟩
  • Sèverine Bérard, Annie Chateau, Cedric Chauve, Christophe Paul, Eric Tannier. Computation of Perfect DCJ Rearrangement Scenarios with Linear and Circular Chromosomes. Journal of Computational Biology, Mary Ann Liebert, 2009, 16 (10), pp.1287-1309. ⟨10.1089/cmb.2009.0088⟩. ⟨lirmm-00432670⟩
  • Carl Herrmann, Sèverine Bérard, Laurent Tichit. SimCT: a generic tool to visualize ontology-based relationships for biological objects.. Bioinformatics, Oxford University Press (OUP), 2009, 25 (23), pp.3197-8. ⟨10.1093/bioinformatics/btp553⟩. ⟨halsde-00454253⟩
  • Sèverine Bérard, Cedric Chauve, Christophe Paul. A More Efficient Algorithm for Perfect Sorting by Reversals. Information Processing Letters, Elsevier, 2008, 106, pp.90-95. ⟨10.1016/j.ipl.2007.10.012⟩. ⟨lirmm-00274051⟩
  • Christophe Paul, Sèverine Bérard, Anne Bergeron, Cedric Chauve. Perfect Sorting by Reversals is not Always Difficult. IEEE/ACM Transactions on Computational Biology and Bioinformatics, Institute of Electrical and Electronics Engineers, 2007, 4 (1), pp.12. ⟨lirmm-00111979⟩
  • Sèverine Bérard, François Nicolas, Jérome Buard, Olivier Gascuel, Eric Rivals. A Fast and Specific Alignment Method for Minisatellite Maps. Evolutionary Bioinformatics, Libertas Academica (New Zealand), 2006, 2, pp.327-344. ⟨10.1177/117693430600200025⟩. ⟨lirmm-00120145⟩
  • Sèverine Bérard, Eric Rivals. Comparison of Minisatellites. Journal of Computational Biology, Mary Ann Liebert, 2003, 10 (3-4), pp. 357-372. ⟨lirmm-00269555⟩

Conference papers9 documents

  • Yoann Anselmetti, Vincent Berry, Cedric Chauve, Annie Chateau, Eric Tannier, et al.. Comment la reconstruction de génomes ancestraux peut aider à l'assemblage de génomes actuels. Journées Ouvertes Biologie Informatique Mathématiques, 2016, Lyon, France. ⟨hal-01394409⟩
  • Sèverine Bérard, Eric Rivals. Comparaison de Minisatellites. JOBIM'02 : Journées Ouvertes Biologie, Informatique, Mathématiques, St Malo, France, pp.261-262. ⟨lirmm-00268469⟩
  • Annie Chateau, Cedric Chauve, Sèverine Bérard, Eric Tannier, Christophe Paul. Perfect DCJ rearrangement. RECOMB-CG: Comparative Genomics, Oct 2008, Paris, France. pp.158-169, ⟨10.1007/978-3-540-87989-3_12⟩. ⟨lirmm-00327258⟩
  • Sèverine Bérard, Anne Bergeron, Cédric Chauve, Christophe Paul. Perfect Sorting by Reversal is not Always Difficult. WABI: Workshop on Algorithms in Bioinformatics, Oct 2005, Mallorca, Spain. pp.228-238, ⟨10.1007/11557067_19⟩. ⟨lirmm-00106465⟩
  • Sèverine Bérard. Alignement de Séquences avec des Opérations non-Communicatives. Francoro IV: 4ième Conférence Internationale en Recherche Opérationnelle, Aug 2004, Fribourg, Suisse. ⟨lirmm-00109129⟩
  • Sèverine Bérard, Anne Bergeron, Cedric Chauve. Conservation of Combinatorial Structures in Evolution Scenarios. RECOMB-CG: Comparative Genomics, Oct 2004, Bertinoro, Italy. pp.1-14, ⟨10.1007/978-3-540-32290-0_1⟩. ⟨lirmm-00108819⟩
  • Sèverine Bérard, Eric Rivals. Comparaison de Séquences avec Amplifications et Contractions. ROADEF'03: Congrès de la Société Française de Recherche Opérationnelle et d'Aide à la Décision, 2003, Avignon, France. pp.169-170. ⟨lirmm-00269459⟩
  • Sèverine Bérard, Eric Rivals. Comparison of Minisatellites. RECOMB 2002 - 6th International Conference on Computational Molecular Biology, Apr 2002, Whashington, DC, United States. pp.67-76, ⟨10.1145/565196.565205⟩. ⟨lirmm-00090351⟩
  • Sèverine Bérard, Eric Rivals. Comparaison de Minisatellites. Réunion Annuelle du Groupe de Génétique et Biologie des Populations, Aug 2002, Montpellier, France. pp.128. ⟨lirmm-00269317⟩

Book sections2 documents

  • Eric Tannier, Adelme Bazin, Adrián Davín, Laurent Guéguen, Sèverine Bérard, et al.. Ancestral Genome Organization as a Diagnosis Tool for Phylogenomics. Scornavacca, Celine; Delsuc, Frédéric; Galtier, Nicolas. Phylogenetics in the Genomic Era, No commercial publisher | Authors open access book, pp.2.5:1--2.5:19, 2020. ⟨hal-02535466⟩
  • Yoann Anselmetti, Nina Luhmann, Sèverine Bérard, Eric Tannier, Cedric Chauve. Comparative Methods for Reconstructing Ancient Genome Organization. Comparative Genomics: Methods and Protocols, pp.343 - 362, 2017, ⟨10.1007/978-1-4939-7463-4_13⟩. ⟨hal-03192460⟩

Other publications1 document

  • Thibault Leroy, Yoann Anselmetti, Marie-Ka Tilak, Sèverine Bérard, Laura Csukonyi, et al.. A bird’s white-eye view on neosex chromosome evolution. 2019, ⟨10.1101/505610⟩. ⟨hal-02155307⟩

Theses1 document

  • Sèverine Bérard. Comparaison de séquences répétées en tandem et application à la génétique. Autre [cs.OH]. Université Montpellier II - Sciences et Techniques du Languedoc, 2003. Français. ⟨tel-00005930⟩

Habilitation à diriger des recherches1 document

  • Sèverine Bérard. Histoires évolutives et autres comptes. Algorithmes et graphes pour la bioinformatique. Bio-informatique [q-bio.QM]. Université de Montpellier, 2016. ⟨tel-02144135⟩