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. 1998 Jan 1;26(1):73–79. doi: 10.1093/nar/26.1.73

SGD: Saccharomyces Genome Database.

J M Cherry 1, C Adler 1, C Ball 1, S A Chervitz 1, S S Dwight 1, E T Hester 1, Y Jia 1, G Juvik 1, T Roe 1, M Schroeder 1, S Weng 1, D Botstein 1
PMCID: PMC147204  PMID: 9399804

Abstract

The Saccharomyces Genome Database (SGD) provides Internet access to the complete Saccharomyces cerevisiae genomic sequence, its genes and their products, the phenotypes of its mutants, and the literature supporting these data. The amount of information and the number of features provided by SGD have increased greatly following the release of the S.cerevisiae genomic sequence, which is currently the only complete sequence of a eukaryotic genome. SGD aids researchers by providing not only basic information, but also tools such as sequence similarity searching that lead to detailed information about features of the genome and relationships between genes. SGD presents information using a variety of user-friendly, dynamically created graphical displays illustrating physical, genetic and sequence feature maps. SGD can be accessed via the World Wide Web at http://genome-www.stanford.edu/Saccharomyces/

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Selected References

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  1. Altschul S. F., Gish W., Miller W., Myers E. W., Lipman D. J. Basic local alignment search tool. J Mol Biol. 1990 Oct 5;215(3):403–410. doi: 10.1016/S0022-2836(05)80360-2. [DOI] [PubMed] [Google Scholar]
  2. Bairoch A., Apweiler R. The SWISS-PROT protein sequence data bank and its supplement TrEMBL in 1998. Nucleic Acids Res. 1998 Jan 1;26(1):38–42. doi: 10.1093/nar/26.1.38. [DOI] [PMC free article] [PubMed] [Google Scholar]
  3. Barker W. C., Garavelli J. S., Haft D. H., Hunt L. T., Marzec C. R., Orcutt B. C., Srinivasarao G. Y., Yeh L. S., Ledley R. S., Mewes H. W. The PIR-International Protein Sequence Database. Nucleic Acids Res. 1998 Jan 1;26(1):27–32. doi: 10.1093/nar/26.1.27. [DOI] [PMC free article] [PubMed] [Google Scholar]
  4. Bassett D. E., Jr, Boguski M. S., Hieter P. Yeast genes and human disease. Nature. 1996 Feb 15;379(6566):589–590. doi: 10.1038/379589a0. [DOI] [PubMed] [Google Scholar]
  5. Bernstein F. C., Koetzle T. F., Williams G. J., Meyer E. F., Jr, Brice M. D., Rodgers J. R., Kennard O., Shimanouchi T., Tasumi M. The Protein Data Bank: a computer-based archival file for macromolecular structures. J Mol Biol. 1977 May 25;112(3):535–542. doi: 10.1016/s0022-2836(77)80200-3. [DOI] [PubMed] [Google Scholar]
  6. Botstein D., Chervitz S. A., Cherry J. M. Yeast as a model organism. Science. 1997 Aug 29;277(5330):1259–1260. doi: 10.1126/science.277.5330.1259. [DOI] [PMC free article] [PubMed] [Google Scholar]
  7. Bowman S., Churcher C., Badcock K., Brown D., Chillingworth T., Connor R., Dedman K., Devlin K., Gentles S., Hamlin N. The nucleotide sequence of Saccharomyces cerevisiae chromosome XIII. Nature. 1997 May 29;387(6632 Suppl):90–93. [PubMed] [Google Scholar]
  8. Bussey H., Kaback D. B., Zhong W., Vo D. T., Clark M. W., Fortin N., Hall J., Ouellette B. F., Keng T., Barton A. B. The nucleotide sequence of chromosome I from Saccharomyces cerevisiae. Proc Natl Acad Sci U S A. 1995 Apr 25;92(9):3809–3813. doi: 10.1073/pnas.92.9.3809. [DOI] [PMC free article] [PubMed] [Google Scholar]
  9. Bussey H., Storms R. K., Ahmed A., Albermann K., Allen E., Ansorge W., Araujo R., Aparicio A., Barrell B., Badcock K. The nucleotide sequence of Saccharomyces cerevisiae chromosome XVI. Nature. 1997 May 29;387(6632 Suppl):103–105. [PubMed] [Google Scholar]
  10. Cherry J. M., Ball C., Weng S., Juvik G., Schmidt R., Adler C., Dunn B., Dwight S., Riles L., Mortimer R. K. Genetic and physical maps of Saccharomyces cerevisiae. Nature. 1997 May 29;387(6632 Suppl):67–73. [PMC free article] [PubMed] [Google Scholar]
  11. Churcher C., Bowman S., Badcock K., Bankier A., Brown D., Chillingworth T., Connor R., Devlin K., Gentles S., Hamlin N. The nucleotide sequence of Saccharomyces cerevisiae chromosome IX. Nature. 1997 May 29;387(6632 Suppl):84–87. [PubMed] [Google Scholar]
  12. Dietrich F. S., Mulligan J., Hennessy K., Yelton M. A., Allen E., Araujo R., Aviles E., Berno A., Brennan T., Carpenter J. The nucleotide sequence of Saccharomyces cerevisiae chromosome V. Nature. 1997 May 29;387(6632 Suppl):78–81. [PMC free article] [PubMed] [Google Scholar]
  13. Goffeau A., Barrell B. G., Bussey H., Davis R. W., Dujon B., Feldmann H., Galibert F., Hoheisel J. D., Jacq C., Johnston M. Life with 6000 genes. Science. 1996 Oct 25;274(5287):546, 563-7. doi: 10.1126/science.274.5287.546. [DOI] [PubMed] [Google Scholar]
  14. Hodges P. E., Payne W. E., Garrels J. I. The Yeast Protein Database (YPD): a curated proteome database for Saccharomyces cerevisiae. Nucleic Acids Res. 1998 Jan 1;26(1):68–72. doi: 10.1093/nar/26.1.68. [DOI] [PMC free article] [PubMed] [Google Scholar]
  15. Hogue C. W. Cn3D: a new generation of three-dimensional molecular structure viewer. Trends Biochem Sci. 1997 Aug;22(8):314–316. doi: 10.1016/s0968-0004(97)01093-1. [DOI] [PubMed] [Google Scholar]
  16. Jacq C., Alt-Mörbe J., Andre B., Arnold W., Bahr A., Ballesta J. P., Bargues M., Baron L., Becker A., Biteau N. The nucleotide sequence of Saccharomyces cerevisiae chromosome IV. Nature. 1997 May 29;387(6632 Suppl):75–78. [PubMed] [Google Scholar]
  17. Johnston M., Andrews S., Brinkman R., Cooper J., Ding H., Dover J., Du Z., Favello A., Fulton L., Gattung S. Complete nucleotide sequence of Saccharomyces cerevisiae chromosome VIII. Science. 1994 Sep 30;265(5181):2077–2082. doi: 10.1126/science.8091229. [DOI] [PubMed] [Google Scholar]
  18. Johnston M., Hillier L., Riles L., Albermann K., André B., Ansorge W., Benes V., Brückner M., Delius H., Dubois E. The nucleotide sequence of Saccharomyces cerevisiae chromosome XII. Nature. 1997 May 29;387(6632 Suppl):87–90. [PMC free article] [PubMed] [Google Scholar]
  19. Maizel J. V., Jr, Lenk R. P. Enhanced graphic matrix analysis of nucleic acid and protein sequences. Proc Natl Acad Sci U S A. 1981 Dec;78(12):7665–7669. doi: 10.1073/pnas.78.12.7665. [DOI] [PMC free article] [PubMed] [Google Scholar]
  20. Mewes H. W., Albermann K., Heumann K., Liebl S., Pfeiffer F. MIPS: a database for protein sequences, homology data and yeast genome information. Nucleic Acids Res. 1997 Jan 1;25(1):28–30. doi: 10.1093/nar/25.1.28. [DOI] [PMC free article] [PubMed] [Google Scholar]
  21. Mortimer R. K., Contopoulou C. R., King J. S. Genetic and physical maps of Saccharomyces cerevisiae, Edition 11. Yeast. 1992 Oct;8(10):817–902. doi: 10.1002/yea.320081002. [DOI] [PubMed] [Google Scholar]
  22. Mortimer R. K., Schild D., Contopoulou C. R., Kans J. A. Genetic map of Saccharomyces cerevisiae, edition 10. Yeast. 1989 Sep-Oct;5(5):321–403. doi: 10.1002/yea.320050503. [DOI] [PubMed] [Google Scholar]
  23. Mortimer R. K., Schild D. Genetic map of Saccharomyces cerevisiae. Microbiol Rev. 1980 Dec;44(4):519–571. doi: 10.1128/mr.44.4.519-571.1980. [DOI] [PMC free article] [PubMed] [Google Scholar]
  24. Murakami Y., Naitou M., Hagiwara H., Shibata T., Ozawa M., Sasanuma S., Sasanuma M., Tsuchiya Y., Soeda E., Yokoyama K. Analysis of the nucleotide sequence of chromosome VI from Saccharomyces cerevisiae. Nat Genet. 1995 Jul;10(3):261–268. doi: 10.1038/ng0795-261. [DOI] [PubMed] [Google Scholar]
  25. Murzin A. G., Brenner S. E., Hubbard T., Chothia C. SCOP: a structural classification of proteins database for the investigation of sequences and structures. J Mol Biol. 1995 Apr 7;247(4):536–540. doi: 10.1006/jmbi.1995.0159. [DOI] [PubMed] [Google Scholar]
  26. Pearson W. R., Lipman D. J. Improved tools for biological sequence comparison. Proc Natl Acad Sci U S A. 1988 Apr;85(8):2444–2448. doi: 10.1073/pnas.85.8.2444. [DOI] [PMC free article] [PubMed] [Google Scholar]
  27. Peitsch M. C. ProMod and Swiss-Model: Internet-based tools for automated comparative protein modelling. Biochem Soc Trans. 1996 Feb;24(1):274–279. doi: 10.1042/bst0240274. [DOI] [PubMed] [Google Scholar]
  28. Velculescu V. E., Zhang L., Zhou W., Vogelstein J., Basrai M. A., Bassett D. E., Jr, Hieter P., Vogelstein B., Kinzler K. W. Characterization of the yeast transcriptome. Cell. 1997 Jan 24;88(2):243–251. doi: 10.1016/s0092-8674(00)81845-0. [DOI] [PubMed] [Google Scholar]

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