Recode-2: new design, new search tools, and many more genes.

Hdl Handle:
http://hdl.handle.net/10147/94018
Title:
Recode-2: new design, new search tools, and many more genes.
Authors:
Bekaert, Michaël; Firth, Andrew E; Zhang, Yan; Gladyshev, Vadim N; Atkins, John F; Baranov, Pavel V
Affiliation:
School of Biology and Environmental Science, University College Dublin, BioSciences Institute, University College Cork, Ireland.
Citation:
Recode-2: new design, new search tools, and many more genes. 2010, 38 (Database issue):D69-74 Nucleic Acids Res.
Journal:
Nucleic acids research
Issue Date:
Jan-2010
URI:
http://hdl.handle.net/10147/94018
DOI:
10.1093/nar/gkp788
PubMed ID:
19783826
Abstract:
'Recoding' is a term used to describe non-standard read-out of the genetic code, and encompasses such phenomena as programmed ribosomal frameshifting, stop codon readthrough, selenocysteine insertion and translational bypassing. Although only a small proportion of genes utilize recoding in protein synthesis, accurate annotation of 'recoded' genes lags far behind annotation of 'standard' genes. In order to address this issue, provide a service to researchers in the field, and offer training data for developers of gene-annotation software, we have gathered together known cases of recoding within the Recode database. Recode-2 is an improved and updated version of the database. It provides access to detailed information on genes known to utilize translational recoding and allows complex search queries, browsing of recoding data and enhanced visualization of annotated sequence elements. At present, the Recode-2 database stores information on approximately 1500 genes that are known to utilize recoding in their expression--a factor of approximately three increase over the previous version of the database. Recode-2 is available at http://recode.ucc.ie.
Language:
en
MeSH:
Algorithms; Animals; Base Sequence; Codon, Terminator; Computational Biology; Databases, Genetic; Databases, Protein; Frameshifting, Ribosomal; Humans; Information Storage and Retrieval; Internet; Molecular Sequence Data; Protein Biosynthesis; Software
ISSN:
1362-4962

Full metadata record

DC FieldValue Language
dc.contributor.authorBekaert, Michaëlen
dc.contributor.authorFirth, Andrew Een
dc.contributor.authorZhang, Yanen
dc.contributor.authorGladyshev, Vadim Nen
dc.contributor.authorAtkins, John Fen
dc.contributor.authorBaranov, Pavel Ven
dc.date.accessioned2010-03-10T10:06:01Z-
dc.date.available2010-03-10T10:06:01Z-
dc.date.issued2010-01-
dc.identifier.citationRecode-2: new design, new search tools, and many more genes. 2010, 38 (Database issue):D69-74 Nucleic Acids Res.en
dc.identifier.issn1362-4962-
dc.identifier.pmid19783826-
dc.identifier.doi10.1093/nar/gkp788-
dc.identifier.urihttp://hdl.handle.net/10147/94018-
dc.description.abstract'Recoding' is a term used to describe non-standard read-out of the genetic code, and encompasses such phenomena as programmed ribosomal frameshifting, stop codon readthrough, selenocysteine insertion and translational bypassing. Although only a small proportion of genes utilize recoding in protein synthesis, accurate annotation of 'recoded' genes lags far behind annotation of 'standard' genes. In order to address this issue, provide a service to researchers in the field, and offer training data for developers of gene-annotation software, we have gathered together known cases of recoding within the Recode database. Recode-2 is an improved and updated version of the database. It provides access to detailed information on genes known to utilize translational recoding and allows complex search queries, browsing of recoding data and enhanced visualization of annotated sequence elements. At present, the Recode-2 database stores information on approximately 1500 genes that are known to utilize recoding in their expression--a factor of approximately three increase over the previous version of the database. Recode-2 is available at http://recode.ucc.ie.-
dc.language.isoenen
dc.subject.meshAlgorithms-
dc.subject.meshAnimals-
dc.subject.meshBase Sequence-
dc.subject.meshCodon, Terminator-
dc.subject.meshComputational Biology-
dc.subject.meshDatabases, Genetic-
dc.subject.meshDatabases, Protein-
dc.subject.meshFrameshifting, Ribosomal-
dc.subject.meshHumans-
dc.subject.meshInformation Storage and Retrieval-
dc.subject.meshInternet-
dc.subject.meshMolecular Sequence Data-
dc.subject.meshProtein Biosynthesis-
dc.subject.meshSoftware-
dc.titleRecode-2: new design, new search tools, and many more genes.en
dc.contributor.departmentSchool of Biology and Environmental Science, University College Dublin, BioSciences Institute, University College Cork, Ireland.en
dc.identifier.journalNucleic acids researchen

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