Database Commons a catalog of biological databases

Database Commons - ISfinder

ISfinder

Citations: 455

z-index 7.20

Short name ISfinder
Full name Insertion Sequence finder
Description ISfinder (www-is.biotoul.fr) is a dedicated database for bacterial insertion sequences (ISs).
URL https://www-is.biotoul.fr
Year founded 2004
Last update & version 2016-03-10    
Availability Free to all users
University/Institution hosted CNRS (Centre national de la recherche scientifique)
Address C.N.R.S. 118 Route de Narbonne, F-31062 Toulouse Cedex, France
City Cedex
Province/State
Country/Region France
Contact name M. Chandler
Contact email mike@ibcg.biotoul.fr
Data type(s)
Major organism(s)
Keyword(s)
  • bacterial insertion sequence
  • DNA sequence
  • open reading frame
  • potential coding sequence
Publication(s)
  • ISfinder: the reference centre for bacterial insertion sequences. [PMID: 16381877]

    P Siguier, J Perochon, L Lestrade, J Mahillon, M Chandler
    Nucleic acids research 2006:34(Database issue)
    455 Citations (Google Scholar as of 2016-04-29)

    Abstract: ISfinder (www-is.biotoul.fr) is a dedicated database for bacterial insertion sequences (ISs). It has superseded the Stanford reference center. One of its functions is to assign IS names and to provide a focal point for a coherent nomenclature. It is also the repository for ISs. Each new IS is indexed together with information such as its DNA sequence and open reading frames or potential coding sequences, the sequence of the ends of the element and target sites, its origin and distribution together with a bibliography where available. Another objective is to continuously monitor ISs to provide updated comprehensive groupings or families and to provide some insight into their phylogenies. The site also contains extensive background information on ISs and transposons in general. Online tools are gradually being added. At present an online Blast facility against the entire bank is available. But additional features will include alignment capability, PsiBLAST and HMM profiles. ISfinder also includes a section on bacterial genomes and is involved in annotating the IS content of these genomes. Finally, this database is currently recommended by several microbiology journals for registration of new IS elements before their publication.

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Tags

DNA
Homo sapiens
bacterial insertion sequence DNA sequence open reading frame potential coding sequence

Record metadata

  • Created on: 2015-07-17
  • Curated by:
    • Lina Ma [2016-03-31]
    • Mengwei Li [2016-02-20]
    • Zhang Zhang [2016-01-04]
    • Chunlei Yu [2015-11-20]
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