Literature DB >> 8867843

CENSOR--a program for identification and elimination of repetitive elements from DNA sequences.

J Jurka1, P Klonowski, V Dagman, P Pelton.   

Abstract

CENSOR is a program designed to identify and eliminate fragments of DNA sequences homologous to any chosen reference sequences, in particular to repetitive elements. CENSOR is based on two principal algorithms of Smith & Waterman (1981) [J. Mol. Biol. 147, 195] and Wilbur & Lipman (1983) [Proc. Natl. Acad. Sci. U.S.A. 80, 726]. It includes several pre-set sensitivity levels based on both biological and statistical criteria which help to distinguish between aligned pairs of homologous and non-homologous sequences. CENSOR has been implemented in C/C + + in the SUN/UNIX environment.

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Year:  1996        PMID： 8867843     DOI： 10.1016/s0097-8485(96)80013-1

Source DB:  PubMed          Journal:  Comput Chem        ISSN： 0097-8485


  134 in total

1.  Generation and analysis of 25 Mb of genomic DNA from the pufferfish Fugu rubripes by sequence scanning.

Authors:  G Elgar; M S Clark; S Meek; S Smith; S Warner; Y J Edwards; N Bouchireb; A Cottage; G S Yeo; Y Umrania; G Williams; S Brenner
Journal:  Genome Res       Date:  1999-10       Impact factor: 9.043

Review 2.  Design and implementation of an introductory course for computer applications in molecular genetics. A case study.

Authors:  S A Krawetz; D D Womble
Journal:  Mol Biotechnol       Date:  2001-01       Impact factor: 2.695

3.  Comparative sequence analysis of human minisatellites showing meiotic repeat instability.

Authors:  J Murray; J Buard; D L Neil; E Yeramian; K Tamaki; C Hollies; A J Jeffreys
Journal:  Genome Res       Date:  1999-02       Impact factor: 9.043

4.  Rolling-circle transposons in eukaryotes.

Authors:  V V Kapitonov; J Jurka
Journal:  Proc Natl Acad Sci U S A       Date:  2001-07-10       Impact factor: 11.205

5.  Sequence-based design of single-copy genomic DNA probes for fluorescence in situ hybridization.

Authors:  P K Rogan; P M Cazcarro; J H Knoll
Journal:  Genome Res       Date:  2001-06       Impact factor: 9.043

6.  Diverse transcriptional initiation revealed by fine, large-scale mapping of mRNA start sites.

Authors:  Y Suzuki; H Taira; T Tsunoda; J Mizushima-Sugano; J Sese; H Hata; T Ota; T Isogai; T Tanaka; S Morishita; K Okubo; Y Sakaki; Y Nakamura; A Suyama; S Sugano
Journal:  EMBO Rep       Date:  2001-05       Impact factor: 8.807

7.  Identification and characterization of the potential promoter regions of 1031 kinds of human genes.

Authors:  Y Suzuki; T Tsunoda; J Sese; H Taira; J Mizushima-Sugano; H Hata; T Ota; T Isogai; T Tanaka; Y Nakamura; A Suyama; Y Sakaki; S Morishita; K Okubo; S Sugano
Journal:  Genome Res       Date:  2001-05       Impact factor: 9.043

8.  Duplication, coclustering, and selection of human Alu retrotransposons.

Authors:  Jerzy Jurka; Oleksiy Kohany; Adam Pavlicek; Vladimir V Kapitonov; Michael V Jurka
Journal:  Proc Natl Acad Sci U S A       Date:  2004-01-21       Impact factor: 11.205

Review 9.  Current methods of gene prediction, their strengths and weaknesses.

Authors:  Catherine Mathé; Marie-France Sagot; Thomas Schiex; Pierre Rouzé
Journal:  Nucleic Acids Res       Date:  2002-10-01       Impact factor: 16.971

10.  The presence of a chromatin boundary appears to shield a transgene in tobacco from RNA silencing.

Authors:  Ludmila Mlynárová; Andrea Hricová; Annelies Loonen; Jan-Peter Nap
Journal:  Plant Cell       Date:  2003-09       Impact factor: 11.277
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