Narcisse

Higher Edu - Research dev card
Development from the higher education and research community
  • Creation or important update: 10/05/10
  • Minor correction: 10/05/10
Keywords

Narcisse : compared genomes browser

This software was developed (or is under development) within the higher education and research community. Its stability can vary (see fields below) and its working state is not guaranteed.

 

General software features

Narcisse is a tool dedicated to the comparison of completely sequenced genomes. Narcisse is essentially a comparative genome browser enabling the exploration of genome conservation at different levels of resolution (from the nucleotide level to the whole chromosome).

The Narcisse software is made of two main components :

  1. A genome comparison pipeline. From completely sequenced genomes (sequence and annotation) local sequence similarities are identified (local alignments are obtained with a program developed by the team and distributed with Narcisse). These local similarities are subsequently used to reconstruct conserved segments at different resolution levels.
  2. A genome browser displaying the syntenies at the different resolution levels described above. The browser is able to display local conservations in the genes neighbourghood as well a conservation of chromosomal segments. Several representations are available: dotplots; comparative maps, circular representation of conserved syntenies using the circos software. In addition personal data or personal sequences can be uploaded and represented or compared against available genomes.

A Narcisse installation is maintained at the developers place, giving access to the comparisons of animals, plants, fungi and bacteria genomes obtained from public data. Narcisse data may be accessed through Biomoby webservices.

Narcisse may be downloaded and locally installed for specific needs. An API, based upon the ensembl API, is available to access genomic data, and a dedicated API may be used to access comparison data.

Context in which the software is used

Exploration of completely sequenced genomes, manual annotation transfer using a comparative genomics approach.

Publications related to the software

Courcelle E, Beausse Y, Letort S, Stahl O, Fremez R, Ngom-Bru C, Gouzy J, Faraut T (2008). Narcisse: a mirror view of conserved syntenies. Nucleic Acids Res 36(Database issue):D485-90.