Literature DB >> 9399818

The Organelle Genome Database Project (GOBASE).

M Korab-Laskowska1, P Rioux, N Brossard, T G Littlejohn, M W Gray, B F Lang, G Burger.   

Abstract

The taxonomically broad organelle genome database (GOBASE) organizes and integrates diverse data related to organelles (mitochondria and chloroplasts). The current version of GOBASE focuses on the mitochondrial subset of data and contains molecular sequences, RNA secondary structures and genetic maps, as well as taxonomic information for all eukaryotic species represented. The database has been designed so that complex biological queries, especially ones posed in a comparative genomics context, are supported. GOBASE has been implemented as a relational database with a web-based user interface (http://megasun.bch.umontreal.ca/gobase/gobas e.html ). Custom software tools have been written in house to assist in the population of the database, data validation, nomenclature standardization and front-end design. The database is fully operational and publicly accessible via the World Wide Web, allowing interactive browsing, sophisticated searching and easy downloading of data.

Mesh：

Substances：

Year:  1998        PMID： 9399818      PMCID： PMC147200          DOI： 10.1093/nar/26.1.138

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


  9 in total

1.  Collection of small subunit (16S- and 16S-like) ribosomal RNA structures: 1994.

Authors:  R R Gutell
Journal:  Nucleic Acids Res       Date:  1994-09       Impact factor: 16.971

2.  A portable search engine and browser for the Entrez database.

Authors:  P A Rioux; W A Gilbert; T G Littlejohn
Journal:  J Comput Biol       Date:  1994       Impact factor: 1.479

3.  The SWISS-PROT protein sequence data bank and its supplement TrEMBL in 1998.

Authors:  A Bairoch; R Apweiler
Journal:  Nucleic Acids Res       Date:  1998-01-01       Impact factor: 16.971

4.  MmtDB: a Metazoa mitochondrial DNA variants database.

Authors:  D Calò; A De Pascali; D Sasanelli; F Tanzariello; M Tommaseo Ponzetta; C Saccone; M Attimonelli
Journal:  Nucleic Acids Res       Date:  1997-01-01       Impact factor: 16.971

5.  The Protein Information Resource (PIR) and the PIR-International Protein Sequence Database.

Authors:  D G George; R J Dodson; J S Garavelli; D H Haft; L T Hunt; C R Marzec; B C Orcutt; K E Sidman; G Y Srinivasarao; L S Yeh; L M Arminski; R S Ledley; A Tsugita; W C Barker
Journal:  Nucleic Acids Res       Date:  1997-01-01       Impact factor: 16.971

6.  The Genome Sequence DataBase version 1.0 (GSDB): from low pass sequences to complete genomes.

Authors:  C Harger; M Skupski; E Allen; C Clark; D Crowley; E Dickinson; D Easley; A Espinosa-Lujan; A Farmer; C Fields; L Flores; L Harris; G Keen; M Manning; M McLeod; J O'Neill; M Pumilia; R Reinert; D Rider; J Rohrlich; Y Romero; J Schwertfeger; G Seluja; A Siepel; P A Schad
Journal:  Nucleic Acids Res       Date:  1997-01-01       Impact factor: 16.971

7.  MITOMAP: an update on the status of the human mitochondrial genome database.

Authors:  A M Kogelnik; M T Lott; M D Brown; S B Navathe; D C Wallace
Journal:  Nucleic Acids Res       Date:  1997-01-01       Impact factor: 16.971

8.  A compilation of large subunit (23S and 23S-like) ribosomal RNA structures: 1993.

Authors:  R R Gutell; M W Gray; M N Schnare
Journal:  Nucleic Acids Res       Date:  1993-07-01       Impact factor: 16.971

9.  EcoCyc: Encyclopedia of Escherichia coli genes and metabolism.

Authors:  P D Karp; M Riley; S M Paley; A Pellegrini-Toole; M Krummenacker
Journal:  Nucleic Acids Res       Date:  1998-01-01       Impact factor: 16.971
  9 in total
  13 in total

1.  GOBASE: the organelle genome database.

Authors:  N Shimko; L Liu; B F Lang; G Burger
Journal:  Nucleic Acids Res       Date:  2001-01-01       Impact factor: 16.971

2.  The mitochondrial genome of the stramenopile alga Chrysodidymus synuroideus. Complete sequence, gene content and genome organization.

Authors:  J M Chesnick; M Goff; J Graham; C Ocampo; B F Lang; E Seif; G Burger
Journal:  Nucleic Acids Res       Date:  2000-07-01       Impact factor: 16.971

Review 3.  The function of genomes in bioenergetic organelles.

Authors:  John F Allen
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2003-01-29       Impact factor: 6.237

4.  GOBASE--a database of mitochondrial and chloroplast information.

Authors:  Emmet A O'Brien; Elarbi Badidi; Ania Barbasiewicz; Cristina deSousa; B Franz Lang; Gertraud Burger
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971

5.  The complete mitochondrial DNA sequence of Scenedesmus obliquus reflects an intermediate stage in the evolution of the green algal mitochondrial genome.

Authors:  A M Nedelcu; R W Lee; C Lemieux; M W Gray; G Burger
Journal:  Genome Res       Date:  2000-06       Impact factor: 9.043

6.  Complete sequence of the mitochondrial DNA of the red alga Porphyra purpurea. Cyanobacterial introns and shared ancestry of red and green algae.

Authors:  G Burger; D Saint-Louis; M W Gray; B F Lang
Journal:  Plant Cell       Date:  1999-09       Impact factor: 11.277

7.  Separate origins of group I introns in two mitochondrial genes of the katablepharid Leucocryptos marina.

Authors:  Yuki Nishimura; Ryoma Kamikawa; Tetsuo Hashimoto; Yuji Inagaki
Journal:  PLoS One       Date:  2012-05-11       Impact factor: 3.240

8.  GOBASE--a database of organelle and bacterial genome information.

Authors:  Emmet A O'Brien; Yue Zhang; LiuSong Yang; Eric Wang; Veronique Marie; B Franz Lang; Gertraud Burger
Journal:  Nucleic Acids Res       Date:  2006-01-01       Impact factor: 16.971

9.  Characterization and phylogenetic analysis of the mitochondrial genome of Glarea lozoyensis indicates high diversity within the order Helotiales.

Authors:  Loubna Youssar; Björn Andreas Grüning; Stefan Günther; Wolfgang Hüttel
Journal:  PLoS One       Date:  2013-09-25       Impact factor: 3.240

10.  GOBASE: an organelle genome database.

Authors:  Emmet A O'Brien; Yue Zhang; Eric Wang; Veronique Marie; Wole Badejoko; B Franz Lang; Gertraud Burger
Journal:  Nucleic Acids Res       Date:  2008-10-25       Impact factor: 16.971
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