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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...

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Detalles Bibliográficos
Autores principales: Mitra, Anirban, Kesarwani, Anil K., Pal, Debnath, Nagaraja, Valakunja
Formato: Texto
Lenguaje:English
Publicado: Oxford University Press 2011
Materias:
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.
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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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