Literature DB >> 11125107

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

P V Baranov1, O L Gurvich, O Fayet, M F Prère, W A Miller, R F Gesteland, J F Atkins, M C Giddings.   

Abstract

The RECODE database is a compilation of 'programmed' translational recoding events taken from the scientific literature and personal communications. The database deals with programmed ribosomal frameshifting, codon redefinition and translational bypass occurring in a variety of organisms. The entries for each event include the sequences of the corresponding genes, their encoded proteins for both the normal and alternate decoding, the types of the recoding events involved, trans-factors and cis-elements that influence recoding. The database is freely available at http://recode.genetics. utah.edu/.

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Year:  2001        PMID： 11125107      PMCID： PMC29850          DOI： 10.1093/nar/29.1.264

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


  6 in total

1.  Database resources of the National Center for Biotechnology Information.

Authors:  D L Wheeler; C Chappey; A E Lash; D D Leipe; T L Madden; G D Schuler; T A Tatusova; B A Rapp
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

Review 2.  Recoding: dynamic reprogramming of translation.

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

Review 3.  Programmed translational frameshifting.

Authors:  P J Farabaugh
Journal:  Annu Rev Genet       Date:  1996       Impact factor: 16.830

4.  Expression of peptide chain release factor 2 requires high-efficiency frameshift.

Authors:  W J Craigen; C T Caskey
Journal:  Nature       Date:  1986 Jul 17-23       Impact factor: 49.962

5.  Structural probing and mutagenic analysis of the stem-loop required for Escherichia coli dnaX ribosomal frameshifting: programmed efficiency of 50%.

Authors:  B Larsen; R F Gesteland; J F Atkins
Journal:  J Mol Biol       Date:  1997-08-08       Impact factor: 5.469

6.  Autoregulatory frameshifting in decoding mammalian ornithine decarboxylase antizyme.

Authors:  S Matsufuji; T Matsufuji; Y Miyazaki; Y Murakami; J F Atkins; R F Gesteland; S Hayashi
Journal:  Cell       Date:  1995-01-13       Impact factor: 41.582
  6 in total
  27 in total

Review 1.  Misreading of termination codons in eukaryotes by natural nonsense suppressor tRNAs.

Authors:  H Beier; M Grimm
Journal:  Nucleic Acids Res       Date:  2001-12-01       Impact factor: 16.971

2.  Translational recoding signals between gag and pol in diverse LTR retrotransposons.

Authors:  Xiang Gao; Ericka R Havecker; Pavel V Baranov; John F Atkins; Daniel F Voytas
Journal:  RNA       Date:  2003-12       Impact factor: 4.942

3.  Gene structure prediction in syntenic DNA segments.

Authors:  Jonathan E Moore; James A Lake
Journal:  Nucleic Acids Res       Date:  2003-12-15       Impact factor: 16.971

4.  RECODE 2003.

Authors:  Pavel V Baranov; Olga L Gurvich; Andrew W Hammer; Raymond F Gesteland; John F Atkins
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971

5.  A -1 ribosomal frameshift in the transcript that encodes the major head protein of bacteriophage A2 mediates biosynthesis of a second essential component of the capsid.

Authors:  Pilar García; Isabel Rodríguez; Juan E Suárez
Journal:  J Bacteriol       Date:  2004-03       Impact factor: 3.490

Review 6.  Translational control in positive strand RNA plant viruses.

Authors:  Theo W Dreher; W Allen Miller
Journal:  Virology       Date:  2006-01-05       Impact factor: 3.616

Review 7.  The alpha-L-fucosidase from Sulfolobus solfataricus.

Authors:  Beatrice Cobucci-Ponzano; Fiorella Conte; Mosè Rossi; Marco Moracci
Journal:  Extremophiles       Date:  2007-08-09       Impact factor: 2.395

8.  Quantitative and qualitative involvement of P3N-PIPO in overcoming recessive resistance against Clover yellow vein virus in pea carrying the cyv1 gene.

Authors:  Sun Hee Choi; Yuka Hagiwara-Komoda; Kenji S Nakahara; Go Atsumi; Ryoko Shimada; Yusuke Hisa; Satoshi Naito; Ichiro Uyeda
Journal:  J Virol       Date:  2013-04-24       Impact factor: 5.103

9.  Endosymbiont DNA in endobacteria-free filarial nematodes indicates ancient horizontal genetic transfer.

Authors:  Samantha N McNulty; Jeremy M Foster; Makedonka Mitreva; Julie C Dunning Hotopp; John Martin; Kerstin Fischer; Bo Wu; Paul J Davis; Sanjay Kumar; Norbert W Brattig; Barton E Slatko; Gary J Weil; Peter U Fischer
Journal:  PLoS One       Date:  2010-06-09       Impact factor: 3.240

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

Authors:  Michaël Bekaert; Andrew E Firth; Yan Zhang; Vadim N Gladyshev; John F Atkins; Pavel V Baranov
Journal:  Nucleic Acids Res       Date:  2009-09-25       Impact factor: 16.971
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