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Literature DB >> 9399792

DNA Data Bank of Japan at work on genome sequence data.

Y Tateno¹, K Fukami-Kobayashi, S Miyazaki, H Sugawara, T Gojobori.

Abstract

We at the DNA Data Bank of Japan (DDBJ) (http://www.ddbj.nig.ac.jp) have recently begun receiving, processing and releasing EST and genome sequence data submitted by various Japanese genome projects. The data include those for human, Arabidopsis thaliana, rice, nematode, Synechocystis sp. and Escherichia coli. Since the quantity of data is very large, we organized teams to conduct preliminary discussions with project teams about data submission and handling for release to the public. We also developed a mass submission tool to cope with a large quantity of data. In addition, to provide genome data on WWW, we developed a genome information system using Java. This system (http://mol.genes.nig.ac.jp/ecoli/) can in theory be used for any genome sequence data. These activities will facilitate processing of large quantities of EST and genome data.

Entities: Species

Mesh：

Substances：
DNA

Year: 1998 PMID： 9399792 PMCID： PMC147185 DOI： 10.1093/nar/26.1.16

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

28 in total

1. Analysis of the nucleotide sequence of chromosome VI from Saccharomyces cerevisiae.

Authors: Y Murakami; M Naitou; H Hagiwara; T Shibata; M Ozawa; S Sasanuma; M Sasanuma; Y Tsuchiya; E Soeda; K Yokoyama
Journal: Nat Genet Date: 1995-07 Impact factor: 38.330

2. A new strategy for genome sequencing.

Authors: J C Venter; H O Smith; L Hood
Journal: Nature Date: 1996-05-30 Impact factor: 49.962

3. Sequence analysis of the genome of the unicellular cyanobacterium Synechocystis sp. strain PCC6803. II. Sequence determination of the entire genome and assignment of potential protein-coding regions.

Authors: T Kaneko; S Sato; H Kotani; A Tanaka; E Asamizu; Y Nakamura; N Miyajima; M Hirosawa; M Sugiura; S Sasamoto; T Kimura; T Hosouchi; A Matsuno; A Muraki; N Nakazaki; K Naruo; S Okumura; S Shimpo; C Takeuchi; T Wada; A Watanabe; M Yamada; M Yasuda; S Tabata
Journal: DNA Res Date: 1996-06-30 Impact factor: 4.458

4. Complete sequence analysis of the genome of the bacterium Mycoplasma pneumoniae.

Authors: R Himmelreich; H Hilbert; H Plagens; E Pirkl; B C Li; R Herrmann
Journal: Nucleic Acids Res Date: 1996-11-15 Impact factor: 16.971

5. Identification of a novel human gene containing the tetratricopeptide repeat domain from the Down syndrome region of chromosome 21.

Authors: M Ohira; A Ootsuyama; E Suzuki; H Ichikawa; N Seki; T Nagase; N Nomura; M Ohki
Journal: DNA Res Date: 1996-02-29 Impact factor: 4.458

6. The minimal gene complement of Mycoplasma genitalium.

Authors: C M Fraser; J D Gocayne; O White; M D Adams; R A Clayton; R D Fleischmann; C J Bult; A R Kerlavage; G Sutton; J M Kelley; R D Fritchman; J F Weidman; K V Small; M Sandusky; J Fuhrmann; D Nguyen; T R Utterback; D M Saudek; C A Phillips; J M Merrick; J F Tomb; B A Dougherty; K F Bott; P C Hu; T S Lucier; S N Peterson; H O Smith; C A Hutchison; J C Venter
Journal: Science Date: 1995-10-20 Impact factor: 47.728

7. A 1.6-Mb P1-based physical map of the Down syndrome region on chromosome 21.

Authors: M Ohira; H Ichikawa; E Suzuki; M Iwaki; K Suzuki; F Saito-Ohara; T Ikeuchi; I Chumakov; H Tanahashi; K Tashiro; Y Sakaki
Journal: Genomics Date: 1996-04-01 Impact factor: 5.736

8. Whole-genome random sequencing and assembly of Haemophilus influenzae Rd.

Authors: R D Fleischmann; M D Adams; O White; R A Clayton; E F Kirkness; A R Kerlavage; C J Bult; J F Tomb; B A Dougherty; J M Merrick
Journal: Science Date: 1995-07-28 Impact factor: 47.728

Review 9. Life with 6000 genes.

Authors: A Goffeau; B G Barrell; H Bussey; R W Davis; B Dujon; H Feldmann; F Galibert; J D Hoheisel; C Jacq; M Johnston; E J Louis; H W Mewes; Y Murakami; P Philippsen; H Tettelin; S G Oliver
Journal: Science Date: 1996-10-25 Impact factor: 47.728

10. Complete genome sequence of the methanogenic archaeon, Methanococcus jannaschii.

Authors: C J Bult; O White; G J Olsen; L Zhou; R D Fleischmann; G G Sutton; J A Blake; L M FitzGerald; R A Clayton; J D Gocayne; A R Kerlavage; B A Dougherty; J F Tomb; M D Adams; C I Reich; R Overbeek; E F Kirkness; K G Weinstock; J M Merrick; A Glodek; J L Scott; N S Geoghagen; J C Venter
Journal: Science Date: 1996-08-23 Impact factor: 47.728

10 in total

DNA Data Bank of Japan at work on genome sequence data.

1. Analysis of the nucleotide sequence of chromosome VI from Saccharomyces cerevisiae.

2. A new strategy for genome sequencing.

3. Sequence analysis of the genome of the unicellular cyanobacterium Synechocystis sp. strain PCC6803. II. Sequence determination of the entire genome and assignment of potential protein-coding regions.

4. Complete sequence analysis of the genome of the bacterium Mycoplasma pneumoniae.

5. Identification of a novel human gene containing the tetratricopeptide repeat domain from the Down syndrome region of chromosome 21.

6. The minimal gene complement of Mycoplasma genitalium.

7. A 1.6-Mb P1-based physical map of the Down syndrome region on chromosome 21.

8. Whole-genome random sequencing and assembly of Haemophilus influenzae Rd.

Review 9. Life with 6000 genes.

10. Complete genome sequence of the methanogenic archaeon, Methanococcus jannaschii.

1. DNA data bank of Japan (DDBJ) in collaboration with mass sequencing teams.

2. DDBJ in the stream of various biological data.

3. DNA Data Bank of Japan (DDBJ) in XML.

4. Complete nucleotide sequence, genome organization and phylogenic analysis of the canine calicivirus.

Review 5. The bioinformatics challenges in comparative analysis of cereal genomes-an overview.

6. DNA Data Bank of Japan (DDBJ) for genome scale research in life science.

7. The non-redundant Bacillus subtilis (NRSub) database: update 1998.

8. Globalizing Genomics: The Origins of the International Nucleotide Sequence Database Collaboration.

9. IMGT, the International ImMunoGeneTics database.

10. FlyNets and GIF-DB, two internet databases for molecular interactions in Drosophila melanogaster.