Literature DB >> 26631132

The Saccharomyces Genome Database: A Tool for Discovery.

J Michael Cherry1.   

Abstract

The Saccharomyces Genome Database (SGD) is the main community repository of information for the budding yeast, Saccharomyces cerevisiae. The SGD has collected published results on chromosomal features, including genes and their products, and has become an encyclopedia of information on the biology of the yeast cell. This information includes gene and gene product function, phenotype, interactions, regulation, complexes, and pathways. All information has been integrated into a unique web resource, accessible via http://yeastgenome.org. The website also provides custom tools to allow useful searches and visualization of data. The experimentally defined functions of genes, mutant phenotypes, and sequence homologies archived in the SGD provide a platform for understanding many fields of biological research. The mission of SGD is to provide public access to all published experimental results on yeast to aid life science students, educators, and researchers. As such, the SGD has become an essential tool for the design of experiments and for the analysis of experimental results.
© 2015 Cold Spring Harbor Laboratory Press.

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Year:  2015        PMID: 26631132      PMCID: PMC5673599          DOI: 10.1101/pdb.top083840

Source DB:  PubMed          Journal:  Cold Spring Harb Protoc        ISSN: 1559-6095


  7 in total

1.  The Saccharomyces Genome Database: Gene Product Annotation of Function, Process, and Component.

Authors:  J Michael Cherry
Journal:  Cold Spring Harb Protoc       Date:  2015-12-02

2.  The Saccharomyces Genome Database: Exploring Biochemical Pathways and Mutant Phenotypes.

Authors:  J Michael Cherry
Journal:  Cold Spring Harb Protoc       Date:  2015-12-02

3.  The Saccharomyces Genome Database: Exploring Genome Features and Their Annotations.

Authors:  J Michael Cherry
Journal:  Cold Spring Harb Protoc       Date:  2015-12-02

4.  The Saccharomyces Genome Database: Advanced Searching Methods and Data Mining.

Authors:  J Michael Cherry
Journal:  Cold Spring Harb Protoc       Date:  2015-12-02

5.  Gene Ontology annotations and resources.

Authors:  J A Blake; M Dolan; H Drabkin; D P Hill; Ni Li; D Sitnikov; S Bridges; S Burgess; T Buza; F McCarthy; D Peddinti; L Pillai; S Carbon; H Dietze; A Ireland; S E Lewis; C J Mungall; P Gaudet; R L Chrisholm; P Fey; W A Kibbe; S Basu; D A Siegele; B K McIntosh; D P Renfro; A E Zweifel; J C Hu; N H Brown; S Tweedie; Y Alam-Faruque; R Apweiler; A Auchinchloss; K Axelsen; B Bely; M -C Blatter; C Bonilla; L Bouguerleret; E Boutet; L Breuza; A Bridge; W M Chan; G Chavali; E Coudert; E Dimmer; A Estreicher; L Famiglietti; M Feuermann; A Gos; N Gruaz-Gumowski; R Hieta; C Hinz; C Hulo; R Huntley; J James; F Jungo; G Keller; K Laiho; D Legge; P Lemercier; D Lieberherr; M Magrane; M J Martin; P Masson; P Mutowo-Muellenet; C O'Donovan; I Pedruzzi; K Pichler; D Poggioli; P Porras Millán; S Poux; C Rivoire; B Roechert; T Sawford; M Schneider; A Stutz; S Sundaram; M Tognolli; I Xenarios; R Foulgar; J Lomax; P Roncaglia; V K Khodiyar; R C Lovering; P J Talmud; M Chibucos; M Gwinn Giglio; H -Y Chang; S Hunter; C McAnulla; A Mitchell; A Sangrador; R Stephan; M A Harris; S G Oliver; K Rutherford; V Wood; J Bahler; A Lock; P J Kersey; D M McDowall; D M Staines; M Dwinell; M Shimoyama; S Laulederkind; T Hayman; S -J Wang; V Petri; T Lowry; P D'Eustachio; L Matthews; R Balakrishnan; G Binkley; J M Cherry; M C Costanzo; S S Dwight; S R Engel; D G Fisk; B C Hitz; E L Hong; K Karra; S R Miyasato; R S Nash; J Park; M S Skrzypek; S Weng; E D Wong; T Z Berardini; E Huala; H Mi; P D Thomas; J Chan; R Kishore; P Sternberg; K Van Auken; D Howe; M Westerfield
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Journal:  Nucleic Acids Res       Date:  2011-11-21       Impact factor: 16.971

7.  The reference genome sequence of Saccharomyces cerevisiae: then and now.

Authors:  Stacia R Engel; Fred S Dietrich; Dianna G Fisk; Gail Binkley; Rama Balakrishnan; Maria C Costanzo; Selina S Dwight; Benjamin C Hitz; Kalpana Karra; Robert S Nash; Shuai Weng; Edith D Wong; Paul Lloyd; Marek S Skrzypek; Stuart R Miyasato; Matt Simison; J Michael Cherry
Journal:  G3 (Bethesda)       Date:  2014-03-20       Impact factor: 3.154

  7 in total
  13 in total

Review 1.  Pathways and Mechanisms that Prevent Genome Instability in Saccharomyces cerevisiae.

Authors:  Christopher D Putnam; Richard D Kolodner
Journal:  Genetics       Date:  2017-07       Impact factor: 4.562

2.  Genetic variation in aneuploidy prevalence and tolerance across Saccharomyces cerevisiae lineages.

Authors:  Eduardo F C Scopel; James Hose; Douda Bensasson; Audrey P Gasch
Journal:  Genetics       Date:  2021-04-15       Impact factor: 4.562

3.  yMap: an automated method to map yeast variants to protein modifications and functional regions.

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Journal:  Bioinformatics       Date:  2017-02-15       Impact factor: 6.937

4.  A microbubble-sparged yeast propagation-fermentation process for bioethanol production.

Authors:  Vijayendran Raghavendran; Joseph P Webb; Michaël L Cartron; Vicki Springthorpe; Tony R Larson; Michael Hines; Hamza Mohammed; William B Zimmerman; Robert K Poole; Jeffrey Green
Journal:  Biotechnol Biofuels       Date:  2020-06-08       Impact factor: 6.040

5.  Multi-study inference of regulatory networks for more accurate models of gene regulation.

Authors:  Dayanne M Castro; Nicholas R de Veaux; Emily R Miraldi; Richard Bonneau
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Journal:  Database (Oxford)       Date:  2019-01-01       Impact factor: 3.451

7.  Using MARRVEL v1.2 for Bioinformatics Analysis of Human Genes and Variant Pathogenicity.

Authors:  Julia Wang; Dongxue Mao; Fatima Fazal; Seon-Young Kim; Shinya Yamamoto; Hugo Bellen; Zhandong Liu
Journal:  Curr Protoc Bioinformatics       Date:  2019-09

8.  TelNet - a database for human and yeast genes involved in telomere maintenance.

Authors:  Delia M Braun; Inn Chung; Nick Kepper; Katharina I Deeg; Karsten Rippe
Journal:  BMC Genet       Date:  2018-05-18       Impact factor: 2.797

9.  YARG: A repository for arsenic-related genes in yeast.

Authors:  Jagat Rathod; Hao-Ping Tu; Yung-I Chang; Yu-Han Chu; Yan-Yuan Tseng; Jiin-Shuh Jean; Wei-Sheng Wu
Journal:  PLoS One       Date:  2018-07-26       Impact factor: 3.240

10.  SUMOylation is required for fungal development and pathogenicity in the rice blast fungus Magnaporthe oryzae.

Authors:  You-Jin Lim; Ki-Tae Kim; Yong-Hwan Lee
Journal:  Mol Plant Pathol       Date:  2018-07-17       Impact factor: 5.663

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