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Depositordc.contributorBush, Stephen J.
Funderdc.contributor.otherBBSRC - Biotechnology and Biological Sciences Research Councilen_UK
Spatial Coveragedc.coverage.spatialUKen
Spatial Coveragedc.coverage.spatialUNITED KINGDOMen
Time Perioddc.coverage.temporalstart=2014; end=2017; scheme=W3C-DTFen
Data Creatordc.creatorClark, Emily L.
Data Creatordc.creatorBush, Stephen J.
Data Creatordc.creatorMcCulloch, Mary E. B.
Data Creatordc.creatorFarquhar, Iseabail L.
Data Creatordc.creatorYoung, Rachel
Data Creatordc.creatorLefevre, Lucas
Data Creatordc.creatorPridans, Clare
Data Creatordc.creatorTsang, Hiu-Gwen
Data Creatordc.creatorWu, Chunlei
Data Creatordc.creatorAfrasiabi, Cyrus
Data Creatordc.creatorWatson, Mick
Data Creatordc.creatorWhitelaw, Bruce
Data Creatordc.creatorFreeman, Thomas C.
Data Creatordc.creatorSummers, Kim M.
Data Creatordc.creatorArchibald, Alan L.
Data Creatordc.creatorHume, David A.
Date Accessioneddc.date.accessioned2017-08-10T10:36:39Z
Date Availabledc.date.available2017-08-10T10:36:39Z
Citationdc.identifier.citationClark, Emily L.; Bush, Stephen J.; McCulloch, Mary E. B.; Farquhar, Iseabail L.; Young, Rachel; Lefevre, Lucas; Pridans, Clare; Tsang, Hiu-Gwen; Wu, Chunlei; Afrasiabi, Cyrus; Watson, Mick; Whitelaw, Bruce; Freeman, Thomas C.; Summers, Kim M.; Archibald, Alan L.; Hume, David A.. (2017). A high resolution atlas of gene expression in the domestic sheep (Ovis aries), 2014-2017 [dataset]. The Roslin Institute, University of Edinburgh. http://dx.doi.org/10.7488/ds/2112.en
Persistent Identifierdc.identifier.urihttp://hdl.handle.net/10283/2786
Persistent Identifierdc.identifier.urihttp://dx.doi.org/10.7488/ds/2112
Dataset Description (abstract)dc.description.abstractSheep are a key source of meat, milk and fibre for the global livestock sector, and an important biomedical model. Global analysis of gene expression across multiple tissues has aided genome annotation and supported functional annotation of mammalian genes. We present a large-scale RNA-Seq dataset representing all the major organ systems from adult sheep and from several juvenile, neonatal and prenatal developmental time points. The Ovis aries reference genome (Oar v3.1) includes 27,504 genes (20,921 protein coding), of which 25,350 (19,921 protein coding) had detectable expression in at least one tissue in the sheep gene expression atlas dataset. Network-based cluster analysis of this dataset grouped genes according to their expression pattern. The principle of guilt by association was used to infer the function of uncharacterised genes from their co-expression with genes of known function. We describe the overall transcriptional signatures present in the sheep gene expression atlas and assign those signatures, where possible, to specific cell populations or pathways. The findings are related to innate immunity by focusing on clusters with an immune signature, and to the advantages of cross-breeding by examining the patterns of genes exhibiting the greatest expression differences between purebred and crossbred animals. This high-resolution gene expression atlas for sheep is, to our knowledge, the largest transcriptomic dataset from any livestock species to date. It provides a resource to improve the annotation of the current reference genome for sheep, presenting a model transcriptome for ruminants and insight into gene, cell and tissue function at multiple developmental stages.en_UK
Dataset Description (TOC)dc.description.tableofcontentsThis dataset contains three .txt files - S1_Dataset.txt, S2_Dataset.txt and S3_Dataset.txt - corresponding to three supplemental files published as Clark, et al. (2017) A high resolution atlas of gene expression in the domestic sheep (Ovis aries). These supplemental files are expression atlases, respectively listing the: (1) expression level per gene per tissue per replicate, (2) average expression level per tissue per developmental stage, and (3) female:male expression ratio per gene. In all cases, expression level is quantified as transcripts per million (TPM).en_UK
Languagedc.language.isoengen_UK
Publisherdc.publisherThe Roslin Institute, University of Edinburghen_UK
Relation (Is Referenced By)dc.relation.isreferencedbyhttp://www.biorxiv.org/content/early/2017/06/08/132696en_UK
Subjectdc.subjectTranscriptomeen_UK
Subjectdc.subjectgenomeen_UK
Subjectdc.subjectfunctional annotationen_UK
Subjectdc.subjectFAANGen_UK
Subjectdc.subjectsheepen_UK
Subjectdc.subjectOvis ariesen_UK
Subjectdc.subjectruminanten_UK
Subjectdc.subjectgene expression atlasen_UK
Subjectdc.subjecttranscription networken_UK
Subject Classificationdc.subject.classificationBiological Sciences::Geneticsen_UK
Titledc.titleA high resolution atlas of gene expression in the domestic sheep (Ovis aries)en_UK
Typedc.typedataseten_UK

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