Literature DB >> 12519954

RECODE 2003.

Pavel V Baranov1, Olga L Gurvich, Andrew W Hammer, Raymond F Gesteland, John F Atkins.   

Abstract

The RECODE database is a compilation of translational recoding events (programmed ribosomal frameshifting, codon redefinition and translational bypass). The database provides information about the genes utilizing these events for their expression, recoding sites, stimulatory sequences and other relevant information. The Database is freely available at http://recode.genetics.utah.edu/.

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Year:  2003        PMID： 12519954      PMCID： PMC165471          DOI： 10.1093/nar/gkg024

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN： 0305-1048            Impact factor:   16.971


  20 in total

1.  RECODE: a database of frameshifting, bypassing and codon redefinition utilized for gene expression.

Authors:  P V Baranov; O L Gurvich; O Fayet; M F Prère; W A Miller; R F Gesteland; J F Atkins; M C Giddings
Journal:  Nucleic Acids Res       Date:  2001-01-01       Impact factor: 16.971

2.  tmRDB (tmRNA database).

Authors:  B Knudsen; J Wower; C Zwieb; J Gorodkin
Journal:  Nucleic Acids Res       Date:  2001-01-01       Impact factor: 16.971

3.  The tmRNA Website: invasion by an intron.

Authors:  Kelly P Williams
Journal:  Nucleic Acids Res       Date:  2002-01-01       Impact factor: 16.971

Review 4.  Structure and function of the stimulatory RNAs involved in programmed eukaryotic-1 ribosomal frameshifting.

Authors:  I Brierley; S Pennell
Journal:  Cold Spring Harb Symp Quant Biol       Date:  2001

Review 5.  Recoding: dynamic reprogramming of translation.

Authors:  R F Gesteland; J F Atkins
Journal:  Annu Rev Biochem       Date:  1996       Impact factor: 23.643

6.  Analysis of the aphthovirus 2A/2B polyprotein 'cleavage' mechanism indicates not a proteolytic reaction, but a novel translational effect: a putative ribosomal 'skip'.

Authors:  Michelle L L Donnelly; Garry Luke; Amit Mehrotra; Xuejun Li; Lorraine E Hughes; David Gani; Martin D Ryan
Journal:  J Gen Virol       Date:  2001-05       Impact factor: 3.891

7.  SsrA-mediated tagging and proteolysis of LacI and its role in the regulation of lac operon.

Authors:  T Abo; T Inada; K Ogawa; H Aiba
Journal:  EMBO J       Date:  2000-07-17       Impact factor: 11.598

8.  A sequence required for -1 ribosomal frameshifting located four kilobases downstream of the frameshift site.

Authors:  C P Paul; J K Barry; S P Dinesh-Kumar; V Brault; W A Miller
Journal:  J Mol Biol       Date:  2001-07-27       Impact factor: 5.469

9.  Stop codons preceded by rare arginine codons are efficient determinants of SsrA tagging in Escherichia coli.

Authors:  Christopher S Hayes; Baundauna Bose; Robert T Sauer
Journal:  Proc Natl Acad Sci U S A       Date:  2002-03-12       Impact factor: 11.205

Review 10.  Antizyme expression: a subversion of triplet decoding, which is remarkably conserved by evolution, is a sensor for an autoregulatory circuit.

Authors:  I P Ivanov; R F Gesteland; J F Atkins
Journal:  Nucleic Acids Res       Date:  2000-09-01       Impact factor: 16.971
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  34 in total

1.  Maintenance of the correct open reading frame by the ribosome.

Authors:  Thomas M Hansen; Pavel V Baranov; Ivaylo P Ivanov; Raymond F Gesteland; John F Atkins
Journal:  EMBO Rep       Date:  2003-05       Impact factor: 8.807

Review 2.  P-site tRNA is a crucial initiator of ribosomal frameshifting.

Authors:  Pavel V Baranov; Raymond F Gesteland; John F Atkins
Journal:  RNA       Date:  2004-02       Impact factor: 4.942

3.  Identification of programmed translational -1 frameshifting sites in the genome of Saccharomyces cerevisiae.

Authors:  Michaël Bekaert; Hugues Richard; Bernard Prum; Jean-Pierre Rousset
Journal:  Genome Res       Date:  2005-10       Impact factor: 9.043

4.  Genes in the postgenomic era.

Authors:  Paul E Griffiths; Karola Stotz
Journal:  Theor Med Bioeth       Date:  2006

5.  Genetic analysis of the E site during RF2 programmed frameshifting.

Authors:  Christina L Sanders; James F Curran
Journal:  RNA       Date:  2007-07-27       Impact factor: 4.942

6.  Whole proteome analysis of post-translational modifications: applications of mass-spectrometry for proteogenomic annotation.

Authors:  Nitin Gupta; Stephen Tanner; Navdeep Jaitly; Joshua N Adkins; Mary Lipton; Robert Edwards; Margaret Romine; Andrei Osterman; Vineet Bafna; Richard D Smith; Pavel A Pevzner
Journal:  Genome Res       Date:  2007-08-09       Impact factor: 9.043

7.  A self-referential model for the formation of the genetic code.

Authors:  Romeu Cardoso Guimarães; Carlos Henrique Costa Moreira; Sávio Torres de Farias
Journal:  Theory Biosci       Date:  2008-05-21       Impact factor: 1.919

8.  Site-specific release of nascent chains from ribosomes at a sense codon.

Authors:  Victoria A Doronina; Cheng Wu; Pablo de Felipe; Matthew S Sachs; Martin D Ryan; Jeremy D Brown
Journal:  Mol Cell Biol       Date:  2008-05-05       Impact factor: 4.272

9.  Evolutionarily conserved orthologous families in phages are relatively rare in their prokaryotic hosts.

Authors:  David M Kristensen; Xixu Cai; Arcady Mushegian
Journal:  J Bacteriol       Date:  2011-02-11       Impact factor: 3.490

10.  Genome sequence of Blochmannia pennsylvanicus indicates parallel evolutionary trends among bacterial mutualists of insects.

Authors:  Patrick H Degnan; Adam B Lazarus; Jennifer J Wernegreen
Journal:  Genome Res       Date:  2005-08       Impact factor: 9.043
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