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WebGeSTer DB—a transcription terminator database
We present WebGeSTer DB, the largest database of intrinsic transcription terminators (http://pallab.serc.iisc.ernet.in/gester). The database comprises of a million terminators identified in 1060 bacterial genome sequences and 798 plasmids. Users can obtain both graphic and tabular results on putativ...
Autores principales: | , , , |
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Formato: | Texto |
Lenguaje: | English |
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Oxford University Press
2011
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Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3013805/ https://www.ncbi.nlm.nih.gov/pubmed/20972211 http://dx.doi.org/10.1093/nar/gkq971 |
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author | Mitra, Anirban Kesarwani, Anil K. Pal, Debnath Nagaraja, Valakunja |
author_facet | Mitra, Anirban Kesarwani, Anil K. Pal, Debnath Nagaraja, Valakunja |
author_sort | Mitra, Anirban |
collection | PubMed |
description | We present WebGeSTer DB, the largest database of intrinsic transcription terminators (http://pallab.serc.iisc.ernet.in/gester). The database comprises of a million terminators identified in 1060 bacterial genome sequences and 798 plasmids. Users can obtain both graphic and tabular results on putative terminators based on default or user-defined parameters. The results are arranged in different tiers to facilitate retrieval, as per the specific requirements. An interactive map has been incorporated to visualize the distribution of terminators across the whole genome. Analysis of the results, both at the whole-genome level and with respect to terminators downstream of specific genes, offers insight into the prevalence of canonical and non-canonical terminators across different phyla. The data in the database reinforce the paradigm that intrinsic termination is a conserved and efficient regulatory mechanism in bacteria. Our database is freely accessible. |
format | Text |
id | pubmed-3013805 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2011 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-30138052011-01-03 WebGeSTer DB—a transcription terminator database Mitra, Anirban Kesarwani, Anil K. Pal, Debnath Nagaraja, Valakunja Nucleic Acids Res Articles We present WebGeSTer DB, the largest database of intrinsic transcription terminators (http://pallab.serc.iisc.ernet.in/gester). The database comprises of a million terminators identified in 1060 bacterial genome sequences and 798 plasmids. Users can obtain both graphic and tabular results on putative terminators based on default or user-defined parameters. The results are arranged in different tiers to facilitate retrieval, as per the specific requirements. An interactive map has been incorporated to visualize the distribution of terminators across the whole genome. Analysis of the results, both at the whole-genome level and with respect to terminators downstream of specific genes, offers insight into the prevalence of canonical and non-canonical terminators across different phyla. The data in the database reinforce the paradigm that intrinsic termination is a conserved and efficient regulatory mechanism in bacteria. Our database is freely accessible. Oxford University Press 2011-01 2010-11-19 /pmc/articles/PMC3013805/ /pubmed/20972211 http://dx.doi.org/10.1093/nar/gkq971 Text en © The Author(s) 2010. Published by Oxford University Press. http://creativecommons.org/licenses/by-nc/2.5 This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.5), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Articles Mitra, Anirban Kesarwani, Anil K. Pal, Debnath Nagaraja, Valakunja WebGeSTer DB—a transcription terminator database |
title | WebGeSTer DB—a transcription terminator database |
title_full | WebGeSTer DB—a transcription terminator database |
title_fullStr | WebGeSTer DB—a transcription terminator database |
title_full_unstemmed | WebGeSTer DB—a transcription terminator database |
title_short | WebGeSTer DB—a transcription terminator database |
title_sort | webgester db—a transcription terminator database |
topic | Articles |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3013805/ https://www.ncbi.nlm.nih.gov/pubmed/20972211 http://dx.doi.org/10.1093/nar/gkq971 |
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