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30

Alexandra Louis

Journal articles26 documents

  • Nga thi thuy Nguyen, Pierre Vincens, Jean François Dufayard, Hugues Roest crollius, Alexandra Louis. Genomicus in 2022: comparative tools for thousands of genomes and reconstructed ancestors. Nucleic Acids Research, Oxford University Press, 2022, 50 (D1), pp.D1025-D1031. ⟨10.1093/nar/gkab1091⟩. ⟨hal-03438462⟩
  • Jean-François Dufayard, Stéphanie Bocs, Valentin Guignon, Delphine Larivière, Alexandra Louis, et al.. RapGreen, an interactive software and web package to explore and analyze phylogenetic trees. NAR Genomics and Bioinformatics, Oxford University Press, 2021, 3 (3), 6 p. ⟨10.1093/nargab/lqab088⟩. ⟨hal-03541670⟩
  • Andrew Thompson, M. Brent Hawkins, Elise Parey, Dustin Wcisel, Tatsuya Ota, et al.. The bowfin genome illuminates the developmental evolution of ray-finned fishes. Nature Genetics, Nature Publishing Group, 2021, ⟨10.1038/s41588-021-00914-y⟩. ⟨hal-03329977⟩
  • Elise Parey, Alexandra Louis, Cédric Cabau, Yann Guiguen, Hugues Roest Crollius, et al.. Synteny-guided resolution of gene trees clarifies the functional impact of whole-genome duplications. Molecular Biology and Evolution, Oxford University Press (OUP), 2020, 37 (11), pp.3324-3337. ⟨10.1093/molbev/msaa149⟩. ⟨hal-03038540⟩
  • Justine Dardaillon, Delphine Dauga, Paul Simion, Emmanuel Faure, Takeshi Onuma, et al.. ANISEED 2019: 4D exploration of genetic data for an extended range of tunicates. Nucleic Acids Research, Oxford University Press, 2019, ⟨10.1093/nar/gkz955⟩. ⟨hal-02415680⟩
  • Matija Brozovic, Christelle Dantec, Justine Dardaillon, Delphine Dauga, Emmanuel Faure, et al.. ANISEED 2017: extending the integrated ascidian database to the exploration and evolutionary comparison of genome-scale datasets. Nucleic Acids Research, Oxford University Press, 2018, 46 (D1), pp.D718-D725. ⟨10.1093/nar/gkx1108⟩. ⟨hal-01636650⟩
  • Christine Sacerdot, Alexandra Louis, Céline Bon, Camille Berthelot, Hugues Roest Crollius. Chromosome evolution at the origin of the ancestral vertebrate genome. Genome Biology, BioMed Central, 2018, 19 (1), ⟨10.1186/s13059-018-1559-1⟩. ⟨hal-02415626⟩
  • Nga thi thuy Nguyen, Pierre Vincens, Hugues Roest Crollius, Alexandra Louis. Genomicus 2018: karyotype evolutionary trees and on-the-fly synteny computing. Nucleic Acids Research, Oxford University Press, 2018, 46 (D1), pp.D816-D822. ⟨10.1093/nar/gkx1003⟩. ⟨hal-02415691⟩
  • Ferdinand Marletaz, Panos N. Firbas, Ignacio Maeso, Juan J. Tena, Ozren Bogdanovic, et al.. Amphioxus functional genomics and the origins of vertebrate gene regulation. Nature, Nature Publishing Group, 2018, 564 (7734), pp.64-70. ⟨10.1038/s41586-018-0734-6⟩. ⟨hal-02000511⟩
  • Claudia Chica, Alexandra Louis, Hugues Roest Crollius, Vincent Colot, François Roudier. Comparative epigenomics in the Brassicaceae reveals two evolutionarily conserved modes of PRC2-mediated gene regulation. Genome Biology, BioMed Central, 2017, 18 (1), pp.1-15. ⟨10.1186/s13059-017-1333-9⟩. ⟨hal-02415743⟩
  • Florent Murat, Alexandra Louis, Florian Maumus, Alix Armero, Richard Cooke, et al.. Erratum to :"Understanding Brassicaceae evolution through ancestral genome reconstruction" (vol 16, 262, 2015). Genome Biology, BioMed Central, 2016, 17 (64), ⟨10.1186/s13059-016-0887-2⟩. ⟨hal-02630062⟩
  • Magali Naville, Minaka Ishibashi, Marco Ferg, Hemant Bengani, Silke Rinkwitz, et al.. Long-range evolutionary constraints reveal cis-regulatory interactions on the human X chromosome.. Nature Communications, Nature Publishing Group, 2015, 6, pp.6904. ⟨10.1038/ncomms7904⟩. ⟨hal-01156469⟩
  • Alexandra Louis, Nga thi thuy Nguyen, Matthieu Muffato, Hugues Roest crollius. Genomicus update 2015: KaryoView and MatrixView provide a genome-wide perspective to multispecies comparative genomics. Nucleic Acids Research, Oxford University Press, 2015, 43 (D1), pp.D682-D689. ⟨10.1093/nar/gku1112⟩. ⟨hal-03352660⟩
  • Alexandra Louis, Florent Murat, Jerome Salse, Hugues Roest Crollius. GenomicusPlants: a web resource to study genome evolution in flowering plants. Plant and Cell Physiology, Oxford University Press (OUP), 2015, 56 (1), pp.e4. ⟨10.1093/pcp/pcu177⟩. ⟨hal-01168460⟩
  • Florent Murat, Alexandra Louis, Florian Maumus, Alix Armero Villanueva, Richard Cooke, et al.. Understanding Brassicaceae evolution through ancestral genome reconstruction. Genome Biology, BioMed Central, 2015, 16 (262), ⟨10.1186/s13059-015-0814-y⟩. ⟨hal-01281832⟩
  • Camille Berthelot, Frédéric Brunet, Domitille Chalopin, Amélie Juanchich, Maria Bernard, et al.. The rainbow trout genome provides novel insights into evolution after whole-genome duplication in vertebrates.. Nature Communications, Nature Publishing Group, 2014, 5, pp.1-10. ⟨10.1038/ncomms4657⟩. ⟨hal-01193812⟩
  • Alexandra Louis, Matthieu Muffato, Hugues Roest Crollius. Genomicus: five genome browsers for comparative genomics in eukaryota. Nucleic Acids Research, Oxford University Press, 2012, 41 (D1), pp.D700-D705. ⟨10.1093/nar/gks1156⟩. ⟨hal-03352666⟩
  • A. Louis, H. Roest Crollius, M. Robinson-Rechavi. How much does the amphioxus genome represent the ancestor of chordates?. Briefings in Functional Genomics and Proteomics, Oxford University Press, 2012, 11 (2), pp.89-95. ⟨10.1093/bfgp/els003⟩. ⟨hal-03352669⟩
  • M. Muffato, A. Louis, C. Poisnel, H. Crollius. Genomicus: a database and a browser to study gene synteny in modern and ancestral genomes. Bioinformatics, Oxford University Press (OUP), 2010, 26 (8), pp.1119-1121. ⟨10.1093/bioinformatics/btq079⟩. ⟨hal-03352670⟩
  • France Denoeud, Simon Henriet, Sutada Mungpakdee, Jean-Marc Aury, Corinne da Silva, et al.. Plasticity of animal genome architecture unmasked by rapid evolution of a pelagic tunicate. Science, American Association for the Advancement of Science (AAAS), 2010, 330 (6009), pp.1381-1385. ⟨10.1126/science.1194167⟩. ⟨halsde-00544648⟩
  • S. Pasek, Anne Bergeron, Jean Loup Risler, Alexandra Louis, Emmanuelle Ollivier, et al.. Identification of genomic features using microsyntenies of domains: Domain teams. Genome Research, Cold Spring Harbor Laboratory Press, 2005, 15 (6), pp.867-874. ⟨10.1101/gr.3638405⟩. ⟨hal-03352673⟩
  • S. Mohseni-Zadeh, Alexandra Louis. PHYTOPROT: a database of clusters of plant proteins. Nucleic Acids Research, Oxford University Press, 2004, 32 (90001), pp.351D-353. ⟨10.1093/nar/gkh040⟩. ⟨hal-03352674⟩
  • J.-C. Aude, A. Louis. An incremental algorithm for Z-value computations. Computers and Chemistry, Elsevier, 2002, 26 (5), pp.402-410. ⟨10.1016/S0097-8485(02)00003-7⟩. ⟨hal-03352687⟩
  • A. Louis, H. Chiapello, C. Fabry, E. Ollivier, A. Hénaut. Deciphering Arabidopsis thaliana gene neighborhoods through bibliographic co-citations. Computers and Chemistry, Elsevier, 2002, 26 (5), pp.511-519. ⟨10.1016/S0097-8485(02)00011-6⟩. ⟨hal-03352685⟩
  • A. Louis, Hélène Chiapello, C. Fabry, E. Ollivier, A. Henaut. Deciphering Arabidopsis thaliana gene neighborhoods through bibliographic co-citations. Computers and Chemistry, Elsevier, 2002, 26 (5), pp.511-519. ⟨10.1016/S0097-8485(02)00011-6⟩. ⟨hal-02676436⟩
  • Alexandra Louis, Emmanuelle Ollivier, Jean-Christophe Aude, Jean Loup Risler. Massive Sequence Comparisons as a Help in Annotating Genomic Sequences. Genome Research, Cold Spring Harbor Laboratory Press, 2001. ⟨hal-03352694⟩

Book sections2 documents

Preprints, Working Papers, ...2 documents

  • Lambert Moyon, Camille Berthelot, Alexandra Louis, Nga Thi Thuy Nguyen, Hugues Roest Crollius. Classification of non-coding variants with high pathogenic impact. 2021. ⟨hal-03352658⟩
  • Elise Parey, Alexandra Louis, Cédric Cabau, Yann Guiguen, Hugues Roest-Crollius, et al.. Synteny-guided resolution of gene trees clarifies the functional impact of whole genome duplications. 2020. ⟨hal-02791038⟩