The EMBL nucleotide sequence database: Contributing and accessing data

Applied Biochemistry and Biotechnology - Part B Molecular Biotechnology

Volumn 12, Issue 3, 1999, Pages 255-267

  Hingamp, Pascal ^b   Van Den Broek, Alexandra E ^b   Stoesser, Guenter ^a   Baker, Wendy ^b  

^a WELLCOME TRUST SANGER INSTITUTE   (United Kingdom)

^b NONE

Author keywords

Databases; EMBL nucleotide sequence database; Sequence retrieval system

Indexed keywords

ALGORITHM; DATA BASE; GENOME; INTERNET; NUCLEOTIDE SEQUENCE; REVIEW;

EID: 0033403567     PISSN: 10736085     EISSN: None     Source Type: Journal    
DOI: 10.1385/mb:12:3:255     Document Type: Review

References (23)

1. 1. European Molecular Biology Laboratory, Heidelberg, Germany http://www.embl-heidelberg.de
2. 2. Stösser G., Tuli, M. A., Lopez, R., and Sterk, P. (1999) The EMBL Nucleotide Sequence Database. Nucleic Acids Research 27, 18-24.
3. 3. European Bioinformatics Institute, EMBL-EBI, Hinxton, Cambridge, UK: http//www.ebi.ac.uk/
4. 4. DNA Data Bank of Japan, Mishima, Japan: http://www.ddbj.nig.ac.jp
5. 5. GenBank, NCBI, Bethesda, MD, USA: http://www.ncbi.nim.nih.gov/
6. 6. SRSWWW server, EMBL-EBI, Hinxton, Cambridge, UK: http//srs.ebi.ac.uk/
7. 7. The DDBJ/EMBL/GenBank Feature Table Definition: http://www.ebi.ac.uk/embl/Documentation/ET_definitions/feature_table.
8. 8. SWISS-PROT and TrEMBL: http://www.ebi.ac.uk/swissprot/
9. 9. WebFeat, EMBL Features and Qualifiers: http://www3.ebi.ac.uk/Services/WebFeat/
10. 10. EMBL Annotation Examples: http://www3.ebi.ac.uk/Services/Standards/web/
11. 11. BlastAll (NCBI Blast2) Vectors Scanning: http://www2.ebi.ac.uk/blastall/vectors.html
12. 12. EMBnet http://www.embnet.org/
13. 13. SEQUIN. ftp://ftp.ebi.ac.uk/pub/software/sequin/ or http://www.ebi.ac.uk/Submissions/index.html
14. 14. Genome MOT: http//www.ebi.ac.uk/-sterk/genome-MOT
15. 15. Patent data: ftp://ftp.ebi.ac.uk/pub/databases/embl/patent/
16. 16. WEBUP linked from: http://www.ebi.ac.uk/embl/Submission/webin.html
17. 17. Alignment submissions: http://www.ebi.ac.uk/embl/Submission/alignment.html and ftp://ftp.ebi.ac.uk/pub/databases/embl/align/
18. 18. Etzold T., Ulyanov A., and Argos P (1996) SRS: information retrieval system for molecular biology data banks. Methods Enzymol. 266, 114-128.
19. 19. Email search addresses: fasta@ebi.ac.uk, blast@ebi.-ac.uk, blitz@ebi.ac.uk, bic@ebi.ac.uk
20. 20. Pearson, W. R. (1994) Using the FASTA program to search protein and DNA sequence databases. Methods Mol. Biol. 24, 307-331.
21. 21. Altschul, S. F., Gish, W., Miller, W., Myers, E. W., and Lipman, D. J. (1990) Basic local alignment search tool. J. Mol. Biol. 215, 403-410.
22. 22. Altschul, S. F., Madden, T. L., Schäffer, A. A., Zhang, J., Zhang, Z., Miller, W., and Lipman, D. J. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25, 3389-3402.
23. 23. Smith, T. F. and Waterman, M. S. (1981) Identification of common molecular subsequences. J. Mol. Biol. 147, 195-197.