ProGeRF: Proteome and Genome Repeat Finder Utilizing a Fast Parallel Hash Function.
Repetitive element sequences are adjacent, repeating patterns, also called motifs, and can be of different lengths; repetitions can involve their exact or approximate copies. They have been widely used as molecular markers in population biology. Given the sizes of sequenced genomes, various bioinfor...
| Publicado en: | BioMed Research International Vol. 2015; pp. 1 - 10 |
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| Autores principales: | , , , |
| Formato: | equations & formulas research tables/charts Journal Article |
| Publicado: |
Wiley-Blackwell
2/25/2015
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| Acceso en línea: | Ver este registro en EBSCOhost |
| fields | @attributes: recordID: 1 pdfLink: plink: https://search.ebscohost.com/login.aspx?direct=true&db=ccm&AN=109273484&site=ehost-live header: @attributes: shortDbName: ccm uiTerm: 109273484 longDbName: CINAHL Complete uiTag: AN controlInfo: bkinfo: dissinfo: jinfo: jid: 23146133 FT2T jtl: BioMed Research International issn: 23146133 maglogo: N pubinfo: dt: 2/25/2015 vid: 2015 pid: 480 pub: Wiley-Blackwell place: Malden, Massachusetts artinfo: ui: 109273484 109273484 109273484 10.1155/2015/394157 109273484 ppf: 1 ppct: 9 formats: fmt: @attributes: type: P tig: atl: ProGeRF: Proteome and Genome Repeat Finder Utilizing a Fast Parallel Hash Function. aug: au: Lopes, Robson da Silva Moraes, Walas Jhony Lopes Rodrigues, Thiago de Souza Bartholomeu, Daniella Castanheira affil: Department of Computer Science, Federal University of Mato Grosso, 78600-000 Barra do Garcas, MT, Brazil sug: subj: Proteomics Genome DNA Cell Physiology Technology Population Biology DNA Physiology Computers and Computerization Methods Funding Source Brazil Data Analysis Descriptive Statistics Human ab: Repetitive element sequences are adjacent, repeating patterns, also called motifs, and can be of different lengths; repetitions can involve their exact or approximate copies. They have been widely used as molecular markers in population biology. Given the sizes of sequenced genomes, various bioinformatics tools have been developed for the extraction of repetitive elements from DNA sequences. However, currently available tools do not provide options for identifying repetitive elements in the genome or proteome, displaying a user-friendly web interface, and performing-exhaustive searches. ProGeRF is a web site for extracting repetitive regions from genome and proteome sequences. It was designed to be efficient, fast, and accurate and primarily user-friendly web tool allowing many ways to view and analyse the results. ProGeRF (Proteome and Genome Repeat Finder) is freely available as a stand-alone program, from which the users can download the source code, and as a web tool. It was developed using the hash table approach to extract perfect and imperfect repetitive regions in a (multi)FASTA file, while allowing a linear time complexity. pubtype: Academic Journal doctype: equations & formulas research tables/charts Journal Article ougenre: Article language: English refInfo: holdings: @attributes: islocal: N |
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