Predicting regulatory elements in repetitive sequences using transcription factor binding sites



Título del documento: Predicting regulatory elements in repetitive sequences using transcription factor binding sites
Revista: Electronic journal of biotechnology
Base de datos: PERIÓDICA
Número de sistema: 000267203
ISSN: 0717-3458
Autors: 1
Institucions: 1National Central University, Taipei. Taiwán
Any:
Període: Dic
Volum: 3
Número: 3
País: Chile
Idioma: Inglés
Tipo de documento: Artículo
Enfoque: Analítico
Resumen en inglés Repeat sequences are the most abundant ones in the extragenic region of genomes. Biologists have already found a large number of regulatory elements in this region. These elements may profoundly impact the chromatin structure formation in nucleus and also contain important clues in genetic evolution and phylogenic study. This study attempts to mine rules on how combinations of individual binding sites are distributed repeat sequences. The association rules mined would facilitate efforts to identify gene classes regulated by similar mechanisms and accurately predict regulatory elements. Herein, the combinations of transcription factor binding sites in the repeat sequences are obtained and, then, data mining techniques are applied to mine the association rules from the combinations of binding sites. In addition, the discovered associations are further pruned to remove those insignificant associations and obtain a set of discovered associations. Finally, the discovered association rules are used to partially classify the repeat sequences in our repeat database. Experiments on several genomes include C. elegans, human chromosome 22 and yeast
Disciplines Ciencias de la computación,
Biología
Paraules clau: Evolución y filogenia,
Genética,
Genoma,
Organización genómica,
Regulación génica,
Bioinformática
Keyword: Computer science,
Biology,
Evolution and phylogeny,
Genetics,
Genome,
Genomic organization,
Genetic regulation,
Bioinformatics
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