InTAD: chromosome conformation guided analysis of enhancer target genes
High-throughput technologies for analyzing chromosome conformation at a genome scale have revealed that chromatin is organized in topologically associated domains (TADs). While TADs are relatively stable across cell types, intra-TAD activities are cell type specific. Epigenetic profiling of differen...
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| Main Authors: | , |
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| Format: | Article (Journal) |
| Language: | English |
| Published: |
31 January 2019
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| In: |
BMC bioinformatics
Year: 2019, Volume: 20 |
| ISSN: | 1471-2105 |
| DOI: | 10.1186/s12859-019-2655-2 |
| Online Access: | Verlag, Volltext: http://dx.doi.org/10.1186/s12859-019-2655-2 Verlag, Volltext: https://doi.org/10.1186/s12859-019-2655-2 
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| Author Notes: | Konstantin Okonechnikov, Serap Erkek, Jan O. Korbel, Stefan M. Pfister and Lukas Chavez |
| Summary: | High-throughput technologies for analyzing chromosome conformation at a genome scale have revealed that chromatin is organized in topologically associated domains (TADs). While TADs are relatively stable across cell types, intra-TAD activities are cell type specific. Epigenetic profiling of different tissues and cell-types has identified a large number of non-coding epigenetic regulatory elements (‘enhancers’) that can be located far away from coding genes. Linear proximity is a commonly chosen criterion for associating enhancers with their potential target genes. While enhancers frequently regulate the closest gene, unambiguous identification of enhancer regulated genes remains to be a challenge in the absence of sample matched chromosome conformation data. |
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| Item Description: | Gesehen am 20.02.2019 |
| Physical Description: | Online Resource |
| ISSN: | 1471-2105 |
| DOI: | 10.1186/s12859-019-2655-2 |