Targeted genome-wide enrichment of functional regions.

Only a small fraction of large genomes such as that of the human contains the functional regions such as the exons, promoters, and polyA sites. A platform technique for selective enrichment of functional genomic regions will enable several next-generation sequencing applications that include the dis...

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Autores principales:	Periannan Senapathy, Ashwini Bhasi, Jeffrey Mattox, Perundurai S Dhandapany, Sakthivel Sadayappan
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2010
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/e48a5ad1a8af41168080bac96cf4a4da
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spelling	oai:doaj.org-article:e48a5ad1a8af41168080bac96cf4a4da2021-12-02T20:20:45ZTargeted genome-wide enrichment of functional regions.1932-620310.1371/journal.pone.0011138https://doaj.org/article/e48a5ad1a8af41168080bac96cf4a4da2010-06-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/20585402/?tool=EBIhttps://doaj.org/toc/1932-6203Only a small fraction of large genomes such as that of the human contains the functional regions such as the exons, promoters, and polyA sites. A platform technique for selective enrichment of functional genomic regions will enable several next-generation sequencing applications that include the discovery of causal mutations for disease and drug response. Here, we describe a powerful platform technique, termed "functional genomic fingerprinting" (FGF), for the multiplexed genomewide isolation and analysis of targeted regions such as the exome, promoterome, or exon splice enhancers. The technique employs a fixed part of a uniquely designed Fixed-Randomized primer, while the randomized part contains all the possible sequence permutations. The Fixed-Randomized primers bind with full sequence complementarity at multiple sites where the fixed sequence (such as the splice signals) occurs within the genome, and multiplex amplify many regions bounded by the fixed sequences (e.g., exons). Notably, validation of this technique using cardiac myosin binding protein-C (MYBPC3) gene as an example strongly supports the application and efficacy of this method. Further, assisted by genomewide computational analyses of such sequences, the FGF technique may provide a unique platform for high-throughput sample production and analysis of targeted genomic regions by the next-generation sequencing techniques, with powerful applications in discovering disease and drug response genes.Periannan SenapathyAshwini BhasiJeffrey MattoxPerundurai S DhandapanySakthivel SadayappanPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 5, Iss 6, p e11138 (2010)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Periannan Senapathy Ashwini Bhasi Jeffrey Mattox Perundurai S Dhandapany Sakthivel Sadayappan Targeted genome-wide enrichment of functional regions.
description	Only a small fraction of large genomes such as that of the human contains the functional regions such as the exons, promoters, and polyA sites. A platform technique for selective enrichment of functional genomic regions will enable several next-generation sequencing applications that include the discovery of causal mutations for disease and drug response. Here, we describe a powerful platform technique, termed "functional genomic fingerprinting" (FGF), for the multiplexed genomewide isolation and analysis of targeted regions such as the exome, promoterome, or exon splice enhancers. The technique employs a fixed part of a uniquely designed Fixed-Randomized primer, while the randomized part contains all the possible sequence permutations. The Fixed-Randomized primers bind with full sequence complementarity at multiple sites where the fixed sequence (such as the splice signals) occurs within the genome, and multiplex amplify many regions bounded by the fixed sequences (e.g., exons). Notably, validation of this technique using cardiac myosin binding protein-C (MYBPC3) gene as an example strongly supports the application and efficacy of this method. Further, assisted by genomewide computational analyses of such sequences, the FGF technique may provide a unique platform for high-throughput sample production and analysis of targeted genomic regions by the next-generation sequencing techniques, with powerful applications in discovering disease and drug response genes.
format	article
author	Periannan Senapathy Ashwini Bhasi Jeffrey Mattox Perundurai S Dhandapany Sakthivel Sadayappan
author_facet	Periannan Senapathy Ashwini Bhasi Jeffrey Mattox Perundurai S Dhandapany Sakthivel Sadayappan
author_sort	Periannan Senapathy
title	Targeted genome-wide enrichment of functional regions.
title_short	Targeted genome-wide enrichment of functional regions.
title_full	Targeted genome-wide enrichment of functional regions.
title_fullStr	Targeted genome-wide enrichment of functional regions.
title_full_unstemmed	Targeted genome-wide enrichment of functional regions.
title_sort	targeted genome-wide enrichment of functional regions.
publisher	Public Library of Science (PLoS)
publishDate	2010
url	https://doaj.org/article/e48a5ad1a8af41168080bac96cf4a4da
work_keys_str_mv	AT periannansenapathy targetedgenomewideenrichmentoffunctionalregions AT ashwinibhasi targetedgenomewideenrichmentoffunctionalregions AT jeffreymattox targetedgenomewideenrichmentoffunctionalregions AT perunduraisdhandapany targetedgenomewideenrichmentoffunctionalregions AT sakthivelsadayappan targetedgenomewideenrichmentoffunctionalregions
_version_	1718374198615736320

Targeted genome-wide enrichment of functional regions.

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