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ChIA-PET tool for comprehensive chromatin interaction analysis with paired-end tag sequencing
Chromatin interaction analysis with paired-end tag sequencing (ChIA-PET) is a new technology to study genome-wide long-range chromatin interactions bound by protein factors. Here we present ChIA-PET Tool, a software package for automatic processing of ChIA-PET sequence data, including linker filteri...
| Autores principales: | , , , , , , , , , , , , |
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| Formato: | Texto |
| Lenguaje: | English |
| Publicado: |
BioMed Central
2010
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| Materias: | |
| Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2872882/ https://www.ncbi.nlm.nih.gov/pubmed/20181287 http://dx.doi.org/10.1186/gb-2010-11-2-r22 |
| _version_ | 1782181279671779328 |
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| author | Li, Guoliang Fullwood, Melissa J Xu, Han Mulawadi, Fabianus Hendriyan Velkov, Stoyan Vega, Vinsensius Ariyaratne, Pramila Nuwantha Mohamed, Yusoff Bin Ooi, Hong-Sain Tennakoon, Chandana Wei, Chia-Lin Ruan, Yijun Sung, Wing-Kin |
| author_facet | Li, Guoliang Fullwood, Melissa J Xu, Han Mulawadi, Fabianus Hendriyan Velkov, Stoyan Vega, Vinsensius Ariyaratne, Pramila Nuwantha Mohamed, Yusoff Bin Ooi, Hong-Sain Tennakoon, Chandana Wei, Chia-Lin Ruan, Yijun Sung, Wing-Kin |
| author_sort | Li, Guoliang |
| collection | PubMed |
| description | Chromatin interaction analysis with paired-end tag sequencing (ChIA-PET) is a new technology to study genome-wide long-range chromatin interactions bound by protein factors. Here we present ChIA-PET Tool, a software package for automatic processing of ChIA-PET sequence data, including linker filtering, mapping tags to reference genomes, identifying protein binding sites and chromatin interactions, and displaying the results on a graphical genome browser. ChIA-PET Tool is fast, accurate, comprehensive, user-friendly, and open source (available at http://chiapet.gis.a-star.edu.sg). |
| format | Text |
| id | pubmed-2872882 |
| institution | National Center for Biotechnology Information |
| language | English |
| publishDate | 2010 |
| publisher | BioMed Central |
| record_format | MEDLINE/PubMed |
| spelling | pubmed-28728822010-05-20 ChIA-PET tool for comprehensive chromatin interaction analysis with paired-end tag sequencing Li, Guoliang Fullwood, Melissa J Xu, Han Mulawadi, Fabianus Hendriyan Velkov, Stoyan Vega, Vinsensius Ariyaratne, Pramila Nuwantha Mohamed, Yusoff Bin Ooi, Hong-Sain Tennakoon, Chandana Wei, Chia-Lin Ruan, Yijun Sung, Wing-Kin Genome Biol Software Chromatin interaction analysis with paired-end tag sequencing (ChIA-PET) is a new technology to study genome-wide long-range chromatin interactions bound by protein factors. Here we present ChIA-PET Tool, a software package for automatic processing of ChIA-PET sequence data, including linker filtering, mapping tags to reference genomes, identifying protein binding sites and chromatin interactions, and displaying the results on a graphical genome browser. ChIA-PET Tool is fast, accurate, comprehensive, user-friendly, and open source (available at http://chiapet.gis.a-star.edu.sg). BioMed Central 2010 2010-02-25 /pmc/articles/PMC2872882/ /pubmed/20181287 http://dx.doi.org/10.1186/gb-2010-11-2-r22 Text en Copyright ©2010 Li et al.; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. |
| spellingShingle | Software Li, Guoliang Fullwood, Melissa J Xu, Han Mulawadi, Fabianus Hendriyan Velkov, Stoyan Vega, Vinsensius Ariyaratne, Pramila Nuwantha Mohamed, Yusoff Bin Ooi, Hong-Sain Tennakoon, Chandana Wei, Chia-Lin Ruan, Yijun Sung, Wing-Kin ChIA-PET tool for comprehensive chromatin interaction analysis with paired-end tag sequencing |
| title | ChIA-PET tool for comprehensive chromatin interaction analysis with paired-end tag sequencing |
| title_full | ChIA-PET tool for comprehensive chromatin interaction analysis with paired-end tag sequencing |
| title_fullStr | ChIA-PET tool for comprehensive chromatin interaction analysis with paired-end tag sequencing |
| title_full_unstemmed | ChIA-PET tool for comprehensive chromatin interaction analysis with paired-end tag sequencing |
| title_short | ChIA-PET tool for comprehensive chromatin interaction analysis with paired-end tag sequencing |
| title_sort | chia-pet tool for comprehensive chromatin interaction analysis with paired-end tag sequencing |
| topic | Software |
| url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2872882/ https://www.ncbi.nlm.nih.gov/pubmed/20181287 http://dx.doi.org/10.1186/gb-2010-11-2-r22 |
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