LEPSCAN-a web server for searching latent periodicity in DNA sequences

被引：2
|
作者：
Shelenkov, Andrew [1 ]
Korotkov, Eugene [1 ,2 ]
机构：
[1] Russian Acad Sci, Bioinformat Dept, Ctr Bioengn, Moscow, Russia
[2] Russian Acad Sci, Dept Appl Math, Moscow Engn Phys Inst, Moscow, Russia
来源：
BRIEFINGS IN BIOINFORMATICS | 2012年 / 13卷 / 02期
关键词：
sequence analysis; periodicity; DNA; in silico prediction; website review; NUMBER TANDEM REPEAT; VARIABLE-NUMBER; CLASSIFICATION; GENOMES; PLANT;
D O I：
10.1093/bib/bbr044
中图分类号：
Q5 [生物化学];
学科分类号：
071010 ; 081704 ;
摘要：
A web server for searching latent periodicity based on the method of modified profile analysis has been developed. This method allows searching latent periodicity in presence of insertions and deletions. During searching process, the periodicity classes are used which were found by us earlier for various groups of organisms. Period length belongs to the range 2-20 nt, not including the triplet periodicity. The results obtained are subjected to various filtration steps to ensure their statistical significance. Availability: The use of web server is free for non-commercial users. No registration is required. URL of the server is free for non-commercial users. No registration is required. URL of the server is http://victoria.biengi.ac.ru/lepscan.. Current software version is 1.06.
引用
收藏
页码：143 / 149
页数：7
相关论文
共 50 条
  • [31] A New Measure for Similarity Searching in DNA Sequences
    Zhang, Yusen
    Chen, Wei
    MATCH-COMMUNICATIONS IN MATHEMATICAL AND IN COMPUTER CHEMISTRY, 2011, 65 (02) : 477 - 488
  • [32] Searching for supermaximal repeats in large DNA sequences
    Lian, Chen Na
    Halachev, Mihail
    Shiri, Nematollaah
    BIOINFORMATICS RESEARCH AND DEVELOPMENT, PROCEEDINGS, 2008, 13 : 87 - 101
  • [33] FATCAT: a web server for flexible structure comparison and structure similarity searching
    Ye, YZ
    Godzik, A
    NUCLEIC ACIDS RESEARCH, 2004, 32 : W582 - W585
  • [34] Latent periodicity of many domains in protein sequences reflects their structure, function, and evolution
    Laskin, AA
    Korotkov, EV
    Kudryashov, NA
    BIOINFORMATICS OF GENOME REGULATION AND STRUCTURE, 2004, : 135 - 143
  • [35] AlignMe: an update of the web server for alignment of membrane protein sequences
    Staritzbichler, Rene
    Yaklich, Emily
    Sarti, Edoardo
    Ristic, Nikola
    Hildebrand, Peter W.
    Forrest, Lucy R.
    NUCLEIC ACIDS RESEARCH, 2022, 50 (W1) : W29 - W35
  • [36] HELIQUEST:: a web server to screen sequences with specific α-helical properties
    Gautier, Romain
    Douguet, Dominique
    Antonny, Bruno
    Drin, Guillaume
    BIOINFORMATICS, 2008, 24 (18) : 2101 - 2102
  • [37] LINKER: a web server to generate peptide sequences with extended conformation
    Xue, F
    Gu, Z
    Feng, JA
    NUCLEIC ACIDS RESEARCH, 2004, 32 : W562 - W565
  • [38] SALIGN: a web server for alignment of multiple protein sequences and structures
    Braberg, Hannes
    Webb, Benjamin M.
    Tjioe, Elina
    Pieper, Ursula
    Sali, Andrej
    Madhusudhan, M. S.
    BIOINFORMATICS, 2012, 28 (15) : 2072 - 2073
  • [39] LSAT: Liliaceae Simple Sequences Analysis Tool, a web server
    Biswas, Manosh Kumar
    Natarajan, Sathishkumar
    Biswas, Dhiman
    Nath, Ujjal Kumar
    Park, Jong-In
    Nou, Ill-Sup
    BIOINFORMATION, 2018, 14 (04) : 181 - 182
  • [40] Visualise Web Usage Mining: Spanning Sequences' impact on Periodicity Discovery
    Alkilany, Ahmed Aburodes Assaid
    2010 14TH INTERNATIONAL CONFERENCE INFORMATION VISUALISATION (IV 2010), 2010, : 301 - 309
12345