7clusters Edit

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Basic information
Short name 7clusters
Full name CLUSTER STRUCTURES IN GENOMIC WORD FREQUENCY DISTRIBUTIONS
Description Based on the analysis of 143 completely sequenced bacterial genomes available in Genbank in August 2004, we show that there are four "pure" types of the 7-cluster structure observed. All 143 cluster animated 3D-scatters are collected in a database which is made available on our web-site .
URL http://www.ihes.fr/~zinovyev/7clusters
Year founded 2004
Last update & version
Availability Free to all users
Contact information
University/Institution hosted Institut Curie
Address Institut Curie, Centre de Recherche, INSERM U900, 26 rue d'Ulm, F75248, Paris, France
City Paris
Province/State
Country/Region France
Contact name Zinovyev, Andrei Y
Contact email andrei.zinovyev@curie.fr
Data information
Object(s)
  • Bacteria
Data type(s)
  • DNA
Data Category/Categories
  • Structure
Major organism(s)
  • NA
Keyword(s)
  • word frequency
  • codon usage
  • clustering
Publications
  • Four basic symmetry types in the universal 7-cluster structure of microbial genomic sequences.[PMID: 15984937]
    Alexander N Gorban, Tatyana G Popova, Andrei Y Zinovyev,

    Coding information is the main source of heterogeneity (non-randomness) in the sequences of microbial genomes. The heterogeneity corresponds to a cluster structure in triplet distributions of relatively short genomic fragments (200-400 bp). We found a universal 7-cluster structure in microbial genomic sequences and explained its properties. We show that codon usage of bacterial genomes is a multi-linear function of their genomic G+C-content with high accuracy. Based on the analysis of 143 completely sequenced bacterial genomes available in Genbank in August 2004, we show that there are four "pure" types of the 7-cluster structure observed. All 143 cluster animated 3D-scatters are collected in a database which is made available on our web-site (http://www.ihes.fr/~zinovyev/7clusters). The findings can be readily introduced into software for gene prediction, sequence alignment or microbial genomes classification.

    In Silico Biol. (Gedrukt) 2005:5(3)

    0 Citations (from Europe PMC, 2018-10-05)

Word cloud

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Record metadata

  • Created on: 2018-02-10
    • Ma Lina [2018-05-17]
    • Wang Qi [2018-02-17]

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