Alexandra Louis

Identifiants chercheurs

IdHAL :

alexandra-louis

ORCID :

0000-0001-7032-5650

IdRef :

067130488

Présentation

Publications

Article dans une revue (28)

Reconstruction of hundreds of reference ancestral genomes across the eukaryotic kingdom Matthieu Muffato,Alexandra Louis,Nga Thi Thuy Nguyen,Joseph Lucas,Camille Berthelotet al. Nature Ecology & Evolution, 2023, 7, pp.355-366. ⟨10.1038/s41559-022-01956-z⟩ Article dans une revue hal-03943655v1
Genome structures resolve the early diversification of teleost fishes Elise Parey,Alexandra Louis,Jérôme Montfort,Olivier Bouchez,Céline Roqueset al. Science, 2023, 379 (6632), pp.572-575. ⟨10.1101/2022.04.07.487469⟩ Article dans une revue hal-03765882v1
Genomicus in 2022: comparative tools for thousands of genomes and reconstructed ancestors Nga thi thuy Nguyen,Pierre Vincens,Jean François Dufayard,Hugues Roest crollius,Alexandra Louis Nucleic Acids Research, 2022, 50 (D1), pp.D1025-D1031. ⟨10.1093/nar/gkab1091⟩ Article dans une revue hal-03438462v1
An atlas of fish genome evolution reveals delayed rediploidization following the teleost whole-genome duplication Elise Parey,Alexandra Louis,Jérôme Montfort,Yann Guiguen,Hugues Roest Crolliuset al. Genome Research, 2022, 32 (9), pp.1685 - 1697. ⟨10.1101/gr.276953.122⟩ Article dans une revue hal-03876769v1
Classification of non-coding variants with high pathogenic impact Lambert Moyon,Camille Berthelot,Alexandra Louis,Nga Thi Thuy Nguyen,Hugues Roest Crollius PLoS Genetics, 2022, 18 (4), pp.e1010191. ⟨10.1371/journal.pgen.1010191⟩ Article dans une revue hal-03698847v1
RapGreen, an interactive software and web package to explore and analyze phylogenetic trees Jean-François Dufayard,Stéphanie Bocs,Valentin Guignon,Delphine Larivière,Alexandra Louiset al. NAR Genomics and Bioinformatics, 2021, 3 (3), 6 p. ⟨10.1093/nargab/lqab088⟩ Article dans une revue hal-03541670v1
Synteny-Guided Resolution of Gene Trees Clarifies the Functional Impact of Whole-Genome Duplications Elise Parey,Alexandra Louis,Cédric Cabau,Yann Guiguen,Hugues Roest Crolliuset al. Molecular Biology and Evolution, 2020, 37 (11), pp.3324 - 3337. ⟨10.1093/molbev/msaa149⟩ Article dans une revue hal-03457579v1
ANISEED 2019: 4D exploration of genetic data for an extended range of tunicates Justine Dardaillon,Delphine Dauga,Paul Simion,Emmanuel Faure,Takeshi Onumaet al. Nucleic Acids Research, 2020, 48 (D1), pp.D668-D675. ⟨10.1093/nar/gkz955⟩ Article dans une revue hal-02415680v1
Amphioxus functional genomics and the origins of vertebrate gene regulation Ferdinand Marletaz,Panos N. Firbas,Ignacio Maeso,Juan J. Tena,Ozren Bogdanovicet al. Nature, 2018, 564 (7734), pp.64-70. ⟨10.1038/s41586-018-0734-6⟩ Article dans une revue hal-02000511v1
Genomicus 2018: karyotype evolutionary trees and on-the-fly synteny computing Nga thi thuy Nguyen,Pierre Vincens,Hugues Roest Crollius,Alexandra Louis Nucleic Acids Research, 2018, 46 (D1), pp.D816-D822. ⟨10.1093/nar/gkx1003⟩ Article dans une revue hal-02415691v1
ANISEED 2017: extending the integrated ascidian database to the exploration and evolutionary comparison of genome-scale datasets Matija Brozovic,Christelle Dantec,Justine Dardaillon,Delphine Dauga,Emmanuel Faureet al. Nucleic Acids Research, 2018, 46 (D1), pp.D718-D725. ⟨10.1093/nar/gkx1108⟩ Article dans une revue hal-01636650v1
Chromosome evolution at the origin of the ancestral vertebrate genome Christine Sacerdot,Alexandra Louis,Céline Bon,Camille Berthelot,Hugues Roest Crollius Genome Biology, 2018, 19 (1), ⟨10.1186/s13059-018-1559-1⟩ Article dans une revue hal-02415626v1
Comparative epigenomics in the Brassicaceae reveals two evolutionarily conserved modes of PRC2-mediated gene regulation Claudia Chica,Alexandra Louis,Hugues Roest Crollius,Vincent Colot,François Roudier Genome Biology, 2017, 18 (1), pp.1-15. ⟨10.1186/s13059-017-1333-9⟩ Article dans une revue hal-02415743v1
Erratum to :&quot;Understanding Brassicaceae evolution through ancestral genome reconstruction&quot; (vol 16, 262, 2015) Florent Murat,Alexandra Louis,Florian Maumus,Alix Armero,Richard Cookeet al. Genome Biology, 2016, 17 (64), ⟨10.1186/s13059-016-0887-2⟩ Article dans une revue hal-02630062v1
GenomicusPlants: a web resource to study genome evolution in flowering plants Alexandra Louis,Florent Murat,Jerome Salse,Hugues Roest Crollius Plant and Cell Physiology, 2015, 56 (1), pp.e4. ⟨10.1093/pcp/pcu177⟩ Article dans une revue hal-01168460v1
Long-range evolutionary constraints reveal cis-regulatory interactions on the human X chromosome. Magali Naville,Minaka Ishibashi,Marco Ferg,Hemant Bengani,Silke Rinkwitzet al. Nature Communications, 2015, 6, pp.6904. ⟨10.1038/ncomms7904⟩ Article dans une revue hal-01156469v1
Understanding Brassicaceae evolution through ancestral genome reconstruction Florent Murat,Alexandra Louis,Florian Maumus,Alix Armero Villanueva,Richard Cookeet al. Genome Biology, 2015, 16 (262), ⟨10.1186/s13059-015-0814-y⟩ Article dans une revue hal-01281832v1
Genomicus update 2015: KaryoView and MatrixView provide a genome-wide perspective to multispecies comparative genomics Alexandra Louis,Nga thi thuy Nguyen,Matthieu Muffato,Hugues Roest crollius Nucleic Acids Research, 2015, 43 (D1), pp.D682-D689. ⟨10.1093/nar/gku1112⟩ Article dans une revue hal-03352660v1
The rainbow trout genome provides novel insights into evolution after whole-genome duplication in vertebrates. Camille Berthelot,Frédéric Brunet,Domitille Chalopin,Amélie Juanchich,Maria Bernardet al. Nature Communications, 2014, 5, pp.1-10. ⟨10.1038/ncomms4657⟩ Article dans une revue hal-01193812v1
Genomicus: five genome browsers for comparative genomics in eukaryota Alexandra Louis,Matthieu Muffato,Hugues Roest Crollius Nucleic Acids Research, 2012, 41 (D1), pp.D700-D705. ⟨10.1093/nar/gks1156⟩ Article dans une revue hal-03352666v1
How much does the amphioxus genome represent the ancestor of chordates? A. Louis,H. Roest Crollius,M. Robinson-Rechavi Briefings in Functional Genomics and Proteomics, 2012, 11 (2), pp.89-95. ⟨10.1093/bfgp/els003⟩ Article dans une revue hal-03352669v1
Plasticity of animal genome architecture unmasked by rapid evolution of a pelagic tunicate France Denoeud,Simon Henriet,Sutada Mungpakdee,Jean-Marc Aury,Corinne da Silvaet al. Science, 2010, 330 (6009), pp.1381-1385. ⟨10.1126/science.1194167⟩ Article dans une revue halsde-00544648v1
Genomicus: a database and a browser to study gene synteny in modern and ancestral genomes M. Muffato,A. Louis,C. Poisnel,H. Crollius Bioinformatics, 2010, 26 (8), pp.1119-1121. ⟨10.1093/bioinformatics/btq079⟩ Article dans une revue hal-03352670v1
Identification of genomic features using microsyntenies of domains: Domain teams S. Pasek,Anne Bergeron,Jean Loup Risler,Alexandra Louis,Emmanuelle Ollivieret al. Genome Research, 2005, 15 (6), pp.867-874. ⟨10.1101/gr.3638405⟩ Article dans une revue hal-03352673v1
PHYTOPROT: a database of clusters of plant proteins S. Mohseni-Zadeh,Alexandra Louis Nucleic Acids Research, 2004, 32 (90001), pp.351D-353. ⟨10.1093/nar/gkh040⟩ Article dans une revue hal-03352674v1
An incremental algorithm for Z-value computations J.-C. Aude,A. Louis Computers and Chemistry, 2002, 26 (5), pp.402-410. ⟨10.1016/S0097-8485(02)00003-7⟩ Article dans une revue istex hal-03352687v1
Deciphering Arabidopsis thaliana gene neighborhoods through bibliographic co-citations A. Louis,Hélène Chiapello,C. Fabry,E. Ollivier,A. Henaut Computers and Chemistry, 2002, 26 (5), pp.511-519. ⟨10.1016/S0097-8485(02)00011-6⟩ Article dans une revue istex hal-02676436v1
Massive Sequence Comparisons as a Help in Annotating Genomic Sequences Alexandra Louis,Emmanuelle Ollivier,Jean-Christophe Aude,Jean Loup Risler Genome Research, 2001 Article dans une revue hal-03352694v1

Poster de conférence (1)

BYTE-Sea: the digital infrastructure of ATLASea, the French marine genome sequencing programme Annie Lebreton,Loraine Brillet-Guéguen,Karine Massau,Alexandre Nicaise,Arthur Le Barset al. JOBIM 2025 - Journées Ouvertes en Biologie, Informatique et Mathématiques, Jul 2025, Bordeaux, France. 2025 Poster de conférence hal-05135947v1

Chapitre d'ouvrage (2)

Banques et bases de données en biologie Hélène Chiapello,Alexandra Louis Bio-Informatique - principes d'utilisation des outils, Editions Quae, 2010 Chapitre d'ouvrage hal-02823616v1
Encyclopedia of Life Sciences Jean-Loup Risler,Alexandra Louis Genetic Databases: Mining, John Wiley & Sons, Ltd, 2001, ⟨10.1038/npg.els.0005313⟩ Chapitre d'ouvrage hal-03352697v1

Pré-publication, Document de travail (2)

Reconstruction of hundreds of reference ancestral genomes across the eukaryotic kingdom Matthieu Muffato,Alexandra Louis,Nga Thi Thuy Nguyen,Joseph Lucas,Camille Berthelotet al. 2022 Pré-publication, Document de travail hal-03765869v1
Synteny-guided resolution of gene trees clarifies the functional impact of whole genome duplications Elise Parey,Alexandra Louis,Cédric Cabau,Yann Guiguen,Hugues Roest-Crolliuset al. 2020 Pré-publication, Document de travail (preprint/prepublication) hal-02791038v1