Literature DB >> 29761454

An Introduction to the Saccharomyces Genome Database (SGD).

Olivia W Lang1, Robert S Nash1, Sage T Hellerstedt1, Stacia R Engel2.   

Abstract

The Saccharomyces Genome Database (SGD) is a well-established, key resource for researchers studying Saccharomyces cerevisiae. In addition to updating and maintaining the official genomic sequence of this highly studied organism, SGD provides integrated data regarding gene functions and phenotypes, which are extracted from the published literature. The vast amount and variety of data housed in the database can prove challenging to navigate for the first-time user. Therefore, this chapter serves as an introduction describing how to search the database in order to discover new information. We introduce the different types of pages on the website, and describe how to manipulate the tables and diagrams therein to display, download, or analyze the data using various SGD tools.

Entities:  

Keywords:  Gene ontology; Genome database; Phenotype; Saccharomyces cerevisiae; Yeast

Mesh：

Year:  2018        PMID： 29761454     DOI： 10.1007/978-1-4939-7737-6_2

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN： 1064-3745


  7 in total

1.  YQFC: a web tool to compare quantitative biological features between two yeast gene lists.

Authors:  Wei-Sheng Wu; Lai-Ji Wang; Han-Chen Yen; Yan-Yuan Tseng
Journal:  Database (Oxford)       Date:  2020-01-01       Impact factor: 3.451

2.  YHMI: a web tool to identify histone modifications and histone/chromatin regulators from a gene list in yeast.

Authors:  Wei-Sheng Wu; Hao-Ping Tu; Yu-Han Chu; Torbjörn E M Nordling; Yan-Yuan Tseng; Hung-Jiun Liaw
Journal:  Database (Oxford)       Date:  2018-01-01       Impact factor: 3.451

3.  The Monarch Initiative in 2019: an integrative data and analytic platform connecting phenotypes to genotypes across species.

Authors:  Kent A Shefchek; Nomi L Harris; Michael Gargano; Nicolas Matentzoglu; Deepak Unni; Matthew Brush; Daniel Keith; Tom Conlin; Nicole Vasilevsky; Xingmin Aaron Zhang; James P Balhoff; Larry Babb; Susan M Bello; Hannah Blau; Yvonne Bradford; Seth Carbon; Leigh Carmody; Lauren E Chan; Valentina Cipriani; Alayne Cuzick; Maria Della Rocca; Nathan Dunn; Shahim Essaid; Petra Fey; Chris Grove; Jean-Phillipe Gourdine; Ada Hamosh; Midori Harris; Ingo Helbig; Maureen Hoatlin; Marcin Joachimiak; Simon Jupp; Kenneth B Lett; Suzanna E Lewis; Craig McNamara; Zoë M Pendlington; Clare Pilgrim; Tim Putman; Vida Ravanmehr; Justin Reese; Erin Riggs; Sofia Robb; Paola Roncaglia; James Seager; Erik Segerdell; Morgan Similuk; Andrea L Storm; Courtney Thaxon; Anne Thessen; Julius O B Jacobsen; Julie A McMurry; Tudor Groza; Sebastian Köhler; Damian Smedley; Peter N Robinson; Christopher J Mungall; Melissa A Haendel; Monica C Munoz-Torres; David Osumi-Sutherland
Journal:  Nucleic Acids Res       Date:  2020-01-08       Impact factor: 16.971

4.  The Human Disease Ontology 2022 update.

Authors:  Lynn M Schriml; James B Munro; Mike Schor; Dustin Olley; Carrie McCracken; Victor Felix; J Allen Baron; Rebecca Jackson; Susan M Bello; Cynthia Bearer; Richard Lichenstein; Katharine Bisordi; Nicole Campion Dialo; Michelle Giglio; Carol Greene
Journal:  Nucleic Acids Res       Date:  2022-01-07       Impact factor: 16.971

5.  Author-sourced capture of pathway knowledge in computable form using Biofactoid.

Authors:  Jeffrey V Wong; Max Franz; Metin Can Siper; Dylan Fong; Funda Durupinar; Christian Dallago; Augustin Luna; John Giorgi; Igor Rodchenkov; Özgün Babur; John A Bachman; Benjamin M Gyori; Emek Demir; Gary D Bader; Chris Sander
Journal:  Elife       Date:  2021-12-03       Impact factor: 8.140

6.  MitoMiner v4.0: an updated database of mitochondrial localization evidence, phenotypes and diseases.

Authors:  Anthony C Smith; Alan J Robinson
Journal:  Nucleic Acids Res       Date:  2019-01-08       Impact factor: 16.971

7.  The Year of the Rat: The Rat Genome Database at 20: a multi-species knowledgebase and analysis platform.

Authors:  Jennifer R Smith; G Thomas Hayman; Shur-Jen Wang; Stanley J F Laulederkind; Matthew J Hoffman; Mary L Kaldunski; Monika Tutaj; Jyothi Thota; Harika S Nalabolu; Santoshi L R Ellanki; Marek A Tutaj; Jeffrey L De Pons; Anne E Kwitek; Melinda R Dwinell; Mary E Shimoyama
Journal:  Nucleic Acids Res       Date:  2020-01-08       Impact factor: 16.971
  7 in total

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