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Genomicus

Genomicus is a genome browser that enables users to navigate in genomes in several dimensions : linearly along chromosome axes, transversaly across different species, and chronologicaly along evolutionary time.

It represents in a graphical way mainly data stored in the Ensembl database.

Different browsers are currently maintained, dedicated to different groups of eukaryote species :

Genomicus Vertebrates Genomicus Plants
Genomicus Metazoa (non vertebrates) Genomicus Fungi
Genomicus Protists Genomicus Trout
Genomicus Tunicates Genomicus Amphioxus

Publications related to Genomicus :

  1. 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, 2021 ;
  2. Justine Dardaillon, Delphine Dauga, Paul Simion, Emmanuel Faure, Takeshi A Onuma, Melissa B DeBiasse, Alexandra Louis, Kazuhiro R Nitta, Magali Naville, Lydia Besnardeau, Wendy Reeves, Kai Wang, Marie Fagotto, Marion Guéroult-Bellone, Shigeki Fujiwara, Rémi Dumollard, Michael Veeman, Jean-Nicolas Volff, Hugues Roest Crollius, Emmanuel Douzery, Joseph F Ryan, Bradley Davidson, Hiroki Nishida, Christelle Dantec, Patrick Lemaire, ANISEED 2019 : 4D exploration of genetic data for an extended range of tunicates, Nucleic Acids Research, 2019 Nov 04
  3. Nguyen,N.T.T., Vincens,P., Roest Crollius,H. and Louis,A. (2017) Genomicus 2018 : karyotype evolutionary trees and on-the-fly synteny computing. Nucleic Acids Res, 2017 Oct 26.
  4. Brozovic,M., Dantec,C., Dardaillon,J., Dauga, D., Faure E., Gineste, M., Louis,A. et al (2017) ANISEED 2017 : extending the integrated ascidian database to the exploration and evolutionary comparison of genome-scale datasets. Nucleic Acids Res, 2017 Nov 15.
  5. Louis A, Murat F, Salse J, Roest Crollius H. (2015) GenomicusPlants : A Web Resource to Study Genome Evolution in Flowering Plants. Plant and Cell Physiology. 56(1):e4.
  6. Louis A, Nguyen NT, Muffato M, Roest Crollius H. (2015) Genomicus update 2015 : KaryoView and MatrixView provide a genome-wide perspective to multispecies comparative genomics. Nucleic Acids Res. 43:D682-9.
  7. Berthelot C, Brunet F, Chalopin C, Juanchich A, Bernard M, Noël B, Bento P, Dasilva C, Labadie K, Alberti A, Aury J-M, Louis A, Dehais P, Bardou P, Montfort J, Klopp C, Cabau C, Gaspin C, Thorgaard GH, Boussaha M, Quillet E, Guyomard R, Galiana D, Bobe J, Volff J-N, Genêt C, Wincker P, Jaillon O, Roest Crollius H, Guiguen Y (2014) The rainbow trout genome provides novel insights into evolution after whole-genome duplication in vertebrates. Nature Communications 5:3657 ;
  8. Louis, A., Muffato, M. Roest Crollius, H. (2013) Genomicus : five genome browsers for comparative genomics in eukaryota. Nucleic Acids Research 41(D1):D700-5
  9. Muffato, M., Louis, A., Poisnel, C-E., Roest Crollius, H. (2010) Genomicus : a database and a browser to study gene synteny in modern and ancestral genomes. Bioinformatics 26:1119-21