Literature DB >> 29761460

A Primer for the Rat Genome Database (RGD).

Stanley J F Laulederkind1, G Thomas Hayman2, Shur-Jen Wang2, Jennifer R Smith2, Victoria Petri2, Matthew J Hoffman3,4, Jeff De Pons2, Marek A Tutaj2, Omid Ghiasvand2, Monika Tutaj2, Jyothi Thota2, Melinda R Dwinell3,4, Mary Shimoyama2.   

Abstract

The laboratory rat, Rattus norvegicus, is an important model of human health and disease, and experimental findings in the rat have relevance to human physiology and disease. The Rat Genome Database (RGD, http://rgd.mcw.edu ) is a model organism database that provides access to a wide variety of curated rat data including disease associations, phenotypes, pathways, molecular functions, biological processes and cellular components for genes, quantitative trait loci, and strains. We present an overview of the database followed by specific examples that can be used to gain experience in employing RGD to explore the wealth of functional data available for the rat.

Entities:  

Keywords:  Database; Gene; Genomics; Ontology; Quantitative trait locus; Rat

Mesh：

Year:  2018        PMID： 29761460      PMCID： PMC6487669          DOI： 10.1007/978-1-4939-7737-6_8

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


  6 in total

1.  Human Disease Ontology 2018 update: classification, content and workflow expansion.

Authors:  Lynn M Schriml; Elvira Mitraka; James Munro; Becky Tauber; Mike Schor; Lance Nickle; Victor Felix; Linda Jeng; Cynthia Bearer; Richard Lichenstein; Katharine Bisordi; Nicole Campion; Brooke Hyman; David Kurland; Connor Patrick Oates; Siobhan Kibbey; Poorna Sreekumar; Chris Le; Michelle Giglio; Carol Greene
Journal:  Nucleic Acids Res       Date:  2019-01-08       Impact factor: 16.971

2.  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

3.  Zebrafish information network, the knowledgebase for Danio rerio research.

Authors:  Yvonne M Bradford; Ceri E Van Slyke; Leyla Ruzicka; Amy Singer; Anne Eagle; David Fashena; Douglas G Howe; Ken Frazer; Ryan Martin; Holly Paddock; Christian Pich; Sridhar Ramachandran; Monte Westerfield
Journal:  Genetics       Date:  2022-04-04       Impact factor: 4.562

4.  New data and collaborations at the Saccharomyces Genome Database: updated reference genome, alleles, and the Alliance of Genome Resources.

Authors:  Stacia R Engel; Edith D Wong; Robert S Nash; Suzi Aleksander; Micheal Alexander; Eric Douglass; Kalpana Karra; Stuart R Miyasato; Matt Simison; Marek S Skrzypek; Shuai Weng; J Michael Cherry
Journal:  Genetics       Date:  2022-04-04       Impact factor: 4.402

5.  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

Review 6.  The Alliance of Genome Resources: Building a Modern Data Ecosystem for Model Organism Databases.

Authors: 
Journal:  Genetics       Date:  2019-12       Impact factor: 4.562
  6 in total

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