Analysis of hundreds of cis-regulatory landscapes at high resolution in a single, high-throughput experiment
Gene expression during development and differentiation is regulated in a cell- and stage-specific manner by complex networks of intergenic and intragenic cis-regulatory elements whose numbers and representation in the genome far exceed those of structural genes. Using chromosome conformation capture...
| Autores principales: | , , , , , , , , , |
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| Formato: | Journal article |
| Lenguaje: | English |
| Publicado: |
Nature Publishing Group
2014
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| _version_ | 1826278546554748928 |
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| author | Hughes, J Roberts, N McGowan, S Hay, D Giannoulatou, E Lynch, M De Gobbi, M Taylor, S Gibbons, R Higgs, D |
| author_facet | Hughes, J Roberts, N McGowan, S Hay, D Giannoulatou, E Lynch, M De Gobbi, M Taylor, S Gibbons, R Higgs, D |
| author_sort | Hughes, J |
| collection | OXFORD |
| description | Gene expression during development and differentiation is regulated in a cell- and stage-specific manner by complex networks of intergenic and intragenic cis-regulatory elements whose numbers and representation in the genome far exceed those of structural genes. Using chromosome conformation capture, it is now possible to analyze in detail the interaction between enhancers, silencers, boundary elements and promoters at individual loci, but these techniques are not readily scalable. Here we present a high-throughput approach (Capture-C) to analyze cis interactions, interrogating hundreds of specific interactions at high resolution in a single experiment. We show how this approach will facilitate detailed, genome-wide analysis to elucidate the general principles by which cis-acting sequences control gene expression. In addition, we show how Capture-C will expedite identification of the target genes and functional effects of SNPs that are associated with complex diseases, which most frequently lie in intergenic cis-acting regulatory elements. |
| first_indexed | 2024-03-06T23:45:32Z |
| format | Journal article |
| id | oxford-uuid:70c4e8bd-b9fb-40a2-a40c-4052d65a48f7 |
| institution | University of Oxford |
| language | English |
| last_indexed | 2024-03-06T23:45:32Z |
| publishDate | 2014 |
| publisher | Nature Publishing Group |
| record_format | dspace |
| spelling | oxford-uuid:70c4e8bd-b9fb-40a2-a40c-4052d65a48f72022-03-26T19:39:22ZAnalysis of hundreds of cis-regulatory landscapes at high resolution in a single, high-throughput experimentJournal articlehttp://purl.org/coar/resource_type/c_dcae04bcuuid:70c4e8bd-b9fb-40a2-a40c-4052d65a48f7EnglishSymplectic Elements at OxfordNature Publishing Group2014Hughes, JRoberts, NMcGowan, SHay, DGiannoulatou, ELynch, MDe Gobbi, MTaylor, SGibbons, RHiggs, DGene expression during development and differentiation is regulated in a cell- and stage-specific manner by complex networks of intergenic and intragenic cis-regulatory elements whose numbers and representation in the genome far exceed those of structural genes. Using chromosome conformation capture, it is now possible to analyze in detail the interaction between enhancers, silencers, boundary elements and promoters at individual loci, but these techniques are not readily scalable. Here we present a high-throughput approach (Capture-C) to analyze cis interactions, interrogating hundreds of specific interactions at high resolution in a single experiment. We show how this approach will facilitate detailed, genome-wide analysis to elucidate the general principles by which cis-acting sequences control gene expression. In addition, we show how Capture-C will expedite identification of the target genes and functional effects of SNPs that are associated with complex diseases, which most frequently lie in intergenic cis-acting regulatory elements. |
| spellingShingle | Hughes, J Roberts, N McGowan, S Hay, D Giannoulatou, E Lynch, M De Gobbi, M Taylor, S Gibbons, R Higgs, D Analysis of hundreds of cis-regulatory landscapes at high resolution in a single, high-throughput experiment |
| title | Analysis of hundreds of cis-regulatory landscapes at high resolution in a single, high-throughput experiment |
| title_full | Analysis of hundreds of cis-regulatory landscapes at high resolution in a single, high-throughput experiment |
| title_fullStr | Analysis of hundreds of cis-regulatory landscapes at high resolution in a single, high-throughput experiment |
| title_full_unstemmed | Analysis of hundreds of cis-regulatory landscapes at high resolution in a single, high-throughput experiment |
| title_short | Analysis of hundreds of cis-regulatory landscapes at high resolution in a single, high-throughput experiment |
| title_sort | analysis of hundreds of cis regulatory landscapes at high resolution in a single high throughput experiment |
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