Literature DB >> 14681386

RPG: the Ribosomal Protein Gene database.

Akihiro Nakao1, Maki Yoshihama, Naoya Kenmochi.   

Abstract

RPG (http://ribosome.miyazaki-med.ac.jp/) is a new database that provides detailed information about ribosomal protein (RP) genes. It contains data from humans and other organisms, including Drosophila melanogaster, Caenorhabditis elegans, Saccharo myces cerevisiae, Methanococcus jannaschii and Escherichia coli. Users can search the database by gene name and organism. Each record includes sequences (genomic, cDNA and amino acid sequences), intron/exon structures, genomic locations and information about orthologs. In addition, users can view and compare the gene structures of the above organisms and make multiple amino acid sequence alignments. RPG also provides information on small nucleolar RNAs (snoRNAs) that are encoded in the introns of RP genes.

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Year:  2004        PMID： 14681386      PMCID： PMC308739          DOI： 10.1093/nar/gkh004

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


  9 in total

1.  A complete map of the human ribosomal protein genes: assignment of 80 genes to the cytogenetic map and implications for human disorders.

Authors:  T Uechi; T Tanaka; N Kenmochi
Journal:  Genomics       Date:  2001-03-15       Impact factor: 5.736

2.  The Ribosomal Database Project (RDP-II): previewing a new autoaligner that allows regular updates and the new prokaryotic taxonomy.

Authors:  J R Cole; B Chai; T L Marsh; R J Farris; Q Wang; S A Kulam; S Chandra; D M McGarrell; T M Schmidt; G M Garrity; J M Tiedje
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971

3.  Identification and analysis of over 2000 ribosomal protein pseudogenes in the human genome.

Authors:  Zhaolei Zhang; Paul Harrison; Mark Gerstein
Journal:  Genome Res       Date:  2002-10       Impact factor: 9.043

4.  A map of 75 human ribosomal protein genes.

Authors:  N Kenmochi; T Kawaguchi; S Rozen; E Davis; N Goodman; T J Hudson; T Tanaka; D C Page
Journal:  Genome Res       Date:  1998-05       Impact factor: 9.043

5.  CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice.

Authors:  J D Thompson; D G Higgins; T J Gibson
Journal:  Nucleic Acids Res       Date:  1994-11-11       Impact factor: 16.971

6.  The human ribosomal protein genes: sequencing and comparative analysis of 73 genes.

Authors:  Maki Yoshihama; Tamayo Uechi; Shuichi Asakawa; Kazuhiko Kawasaki; Seishi Kato; Sayomi Higa; Noriko Maeda; Shinsei Minoshima; Tatsuo Tanaka; Nobuyoshi Shimizu; Naoya Kenmochi
Journal:  Genome Res       Date:  2002-03       Impact factor: 9.043

7.  WormBase: a cross-species database for comparative genomics.

Authors:  Todd W Harris; Raymond Lee; Erich Schwarz; Keith Bradnam; Daniel Lawson; Wen Chen; Darin Blasier; Eimear Kenny; Fiona Cunningham; Ranjana Kishore; Juancarlos Chan; Hans-Michael Muller; Andrei Petcherski; Gudmundur Thorisson; Allen Day; Tamberlyn Bieri; Anthony Rogers; Chao-Kung Chen; John Spieth; Paul Sternberg; Richard Durbin; Lincoln D Stein
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971

8.  Saccharomyces Genome Database (SGD) provides biochemical and structural information for budding yeast proteins.

Authors:  Shuai Weng; Qing Dong; Rama Balakrishnan; Karen Christie; Maria Costanzo; Kara Dolinski; Selina S Dwight; Stacia Engel; Dianna G Fisk; Eurie Hong; Laurie Issel-Tarver; Anand Sethuraman; Chandra Theesfeld; Rey Andrada; Gail Binkley; Christopher Lane; Mark Schroeder; David Botstein; J Michael Cherry
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971

9.  The FlyBase database of the Drosophila genome projects and community literature.

Authors: 
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971
  9 in total
  82 in total

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Authors:  Trevor J Parry; Joshua W M Theisen; Jer-Yuan Hsu; Yuan-Liang Wang; David L Corcoran; Moriah Eustice; Uwe Ohler; James T Kadonaga
Journal:  Genes Dev       Date:  2010-08-27       Impact factor: 11.361

2.  Architecture of the large subunit of the mammalian mitochondrial ribosome.

Authors:  Basil J Greber; Daniel Boehringer; Alexander Leitner; Philipp Bieri; Felix Voigts-Hoffmann; Jan P Erzberger; Marc Leibundgut; Ruedi Aebersold; Nenad Ban
Journal:  Nature       Date:  2013-12-22       Impact factor: 49.962

3.  Identification of Changing Ribosome Protein Compositions using Mass Spectrometry.

Authors:  Parimal Samir; Christopher M Browne; Ming Sun; Bingxin Shen; Wen Li; Joachim Frank; Andrew J Link
Journal:  Proteomics       Date:  2018-10       Impact factor: 3.984

4.  Functional interplay between ribosomal protein paralogues in the eRpL22 family in Drosophila melanogaster.

Authors:  Catherine M Mageeney; Michael G Kearse; Brett W Gershman; Caroline E Pritchard; Jennifer M Colquhoun; Vassie C Ware
Journal:  Fly (Austin)       Date:  2018-11-29       Impact factor: 2.160

5.  Efficient analysis of mammalian polysomes in cells and tissues using Ribo Mega-SEC.

Authors:  Harunori Yoshikawa; Mark Larance; Dylan J Harney; Ramasubramanian Sundaramoorthy; Tony Ly; Tom Owen-Hughes; Angus I Lamond
Journal:  Elife       Date:  2018-08-10       Impact factor: 8.140

6.  Evolution of Drosophila ribosomal protein gene core promoters.

Authors:  Xiaotu Ma; Kangyu Zhang; Xiaoman Li
Journal:  Gene       Date:  2008-11-07       Impact factor: 3.688

7.  Steroid hormone control of cell death and cell survival: molecular insights using RNAi.

Authors:  Suganthi Chittaranjan; Melissa McConechy; Ying-Chen Claire Hou; J Douglas Freeman; Lindsay Devorkin; Sharon M Gorski
Journal:  PLoS Genet       Date:  2009-02-13       Impact factor: 5.917

8.  Analysis of the complete genome of Fervidococcus fontis confirms the distinct phylogenetic position of the order Fervidicoccales and suggests its environmental function.

Authors:  Alexander V Lebedinsky; Andrey V Mardanov; Ilya V Kublanov; Vadim M Gumerov; Alexey V Beletsky; Anna A Perevalova; Salima Kh Bidzhieva; Elizaveta A Bonch-Osmolovskaya; Konstantin G Skryabin; Nikolai V Ravin
Journal:  Extremophiles       Date:  2013-12-24       Impact factor: 2.395

9.  Identification of genes expressed in the hermaphrodite germ line of C. elegans using SAGE.

Authors:  Xin Wang; Yongjun Zhao; Kim Wong; Peter Ehlers; Yuji Kohara; Steven J Jones; Marco A Marra; Robert A Holt; Donald G Moerman; Dave Hansen
Journal:  BMC Genomics       Date:  2009-05-09       Impact factor: 3.969

10.  Comparative analysis of processed ribosomal protein pseudogenes in four mammalian genomes.

Authors:  Suganthi Balasubramanian; Deyou Zheng; Yuen-Jong Liu; Gang Fang; Adam Frankish; Nicholas Carriero; Rebecca Robilotto; Philip Cayting; Mark Gerstein
Journal:  Genome Biol       Date:  2009-01-05       Impact factor: 13.583
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