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phiSITE: database of gene regulation in bacteriophages
We have developed phiSITE, database of gene regulation in bacteriophages. To date it contains detailed information about more than 700 experimentally confirmed or predicted regulatory elements (promoters, operators, terminators and attachment sites) from 32 bacteriophages belonging to Siphoviridae,...
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Formato: | Texto |
Lenguaje: | English |
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Oxford University Press
2010
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Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2808901/ https://www.ncbi.nlm.nih.gov/pubmed/19900969 http://dx.doi.org/10.1093/nar/gkp911 |
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author | Klucar, Lubos Stano, Matej Hajduk, Matus |
author_facet | Klucar, Lubos Stano, Matej Hajduk, Matus |
author_sort | Klucar, Lubos |
collection | PubMed |
description | We have developed phiSITE, database of gene regulation in bacteriophages. To date it contains detailed information about more than 700 experimentally confirmed or predicted regulatory elements (promoters, operators, terminators and attachment sites) from 32 bacteriophages belonging to Siphoviridae, Myoviridae and Podoviridae families. The database is manually curated, the data are collected mainly form scientific papers, cross-referenced with other database resources (EMBL, UniProt, NCBI taxonomy database, NCBI Genome, ICTVdb, PubMed Central) and stored in SQL based database system. The system provides full text search for regulatory elements, graphical visualization of phage genomes and several export options. In addition, visualizations of gene regulatory networks for five phages (Bacillus phage GA-1, Enterobacteria phage lambda, Enterobacteria phage Mu, Enterobacteria phage P2 and Mycoplasma phage P1) have been defined and made available. The phiSITE is accessible at http://www.phisite.org/. |
format | Text |
id | pubmed-2808901 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2010 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-28089012010-01-20 phiSITE: database of gene regulation in bacteriophages Klucar, Lubos Stano, Matej Hajduk, Matus Nucleic Acids Res Articles We have developed phiSITE, database of gene regulation in bacteriophages. To date it contains detailed information about more than 700 experimentally confirmed or predicted regulatory elements (promoters, operators, terminators and attachment sites) from 32 bacteriophages belonging to Siphoviridae, Myoviridae and Podoviridae families. The database is manually curated, the data are collected mainly form scientific papers, cross-referenced with other database resources (EMBL, UniProt, NCBI taxonomy database, NCBI Genome, ICTVdb, PubMed Central) and stored in SQL based database system. The system provides full text search for regulatory elements, graphical visualization of phage genomes and several export options. In addition, visualizations of gene regulatory networks for five phages (Bacillus phage GA-1, Enterobacteria phage lambda, Enterobacteria phage Mu, Enterobacteria phage P2 and Mycoplasma phage P1) have been defined and made available. The phiSITE is accessible at http://www.phisite.org/. Oxford University Press 2010-01 2009-11-09 /pmc/articles/PMC2808901/ /pubmed/19900969 http://dx.doi.org/10.1093/nar/gkp911 Text en © The Author(s) 2009. Published by Oxford University Press. http://creativecommons.org/licenses/by-nc/2.5/uk/ 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/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Articles Klucar, Lubos Stano, Matej Hajduk, Matus phiSITE: database of gene regulation in bacteriophages |
title | phiSITE: database of gene regulation in bacteriophages |
title_full | phiSITE: database of gene regulation in bacteriophages |
title_fullStr | phiSITE: database of gene regulation in bacteriophages |
title_full_unstemmed | phiSITE: database of gene regulation in bacteriophages |
title_short | phiSITE: database of gene regulation in bacteriophages |
title_sort | phisite: database of gene regulation in bacteriophages |
topic | Articles |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2808901/ https://www.ncbi.nlm.nih.gov/pubmed/19900969 http://dx.doi.org/10.1093/nar/gkp911 |
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