• Finches, sparrows, buntings, dunnocks and tits. Images of pathology and parasites. 

      Pennycott, Tom
      This dataset contributed to the Doctor of Veterinary Medicine & Surgery (DVM&S) thesis "Diseases of wild birds of the Orders Passeriformes and Columbiformes - a review of conditions reported from the United Kingdom and an ...
    • Gene expression in the cardiovascular system of the domestic sheep (Ovis aries) 

      Tsang, Hiu-Gwen; Clark, Emily L; Markby, Greg A; Bush, Stephen J; Hume, David A; Corcoran, Brendan M; MacRae, Vicky E; Summers, Kim M
      This dataset includes gene expression estimates, from RNA-Seq, for seven cardiovascular and one skeletal muscle tissue from the sheep gene expression atlas dataset (https://journals.plos.org/plosgenetics/article?id=10.13 ...
    • Genome-wide pleiotropy and shared biological pathways for resistance to bovine pathogens 

      Mahmoud, Medhat; Haley, Chris; König, Sven
      A README.txt file was uploaded with the data.
    • The genomic and proteomic landscape of the rumen microbiome revealed by comprehensive genome-resolved metagenomics 

      Watson, Mick
      "Metagenomic and proteomic datasets from: The genomic and proteomic landscape of the rumen microbiome revealed by comprehensive genome-resolved metagenomics Rob. D. Stewart, Marc D. Auffret, Amanda Warr, Alan Walker, ...
    • GenOMICC Covid-19 critical illness summary statistics non-European ancestries 

      Pairo-Castineira, Erola; BBSRC - Biotechnology and Biological Sciences Research Council; MRC - Medical Research Council; NIHR - National Institute for Health Research; University of Edinburgh; Wellcome Trust; Sepsis Research (the Fiona Elizabeth Agnew Trust); Intensive Care Society; UK Department of Health and Social Care; UKRI and LifeArc; Bill and Melinda Gates Foundation; EU Platform foR European Preparedness Against (Re-) emerging Epidemics (PREPARE)
      Non-European ancestries GWAS summary statistics for Covid-19 critical illness from the GenOMICC study
    • GenOMICC Covid-19 summary statistics European ancestry 

      Pairo-Castineira, Erola; BBSRC - Biotechnology and Biological Sciences Research Council; MRC - Medical Research Council; NIHR - National Institute for Health Research; Bill & Melinda Gates Foundation; University of Edinburgh; Wellcome Trust; Sepsis Research (the Fiona Elizabeth Agnew Trust); Intensive Care Society; UK Department of Health and Social Care; UKRI and LifeArc; EU Platform foR European Preparedness Against (Re-) emerging Epidemics (PREPARE)
      GWAS summary statistics for European ancestry, from the GenOMICC Covid-19 critical illness study. GWAS was performed with 1676 Europeans and 5*1676 controls and validated using 100K Genomics England controls and Generation ...
    • GWAS hair colour 

      Pairo-Castineira, Erola; Jackson, Ian; Tenesa, Albert; Morgan, Michael
      Natural hair colour within European populations is a complex genetic trait. Previous work has established that MC1R variants are the principal genetic cause of red hair colour, but with variable penetrance. Here, we have ...
    • hapbin: An efficient program for performing haplotype based scans for positive selection in large genomic datasets 

      Prendergast, James; Maclean, Colin A.; Chue Hong, Neil
      These files contain genome-wide integrated haplotype scores (iHS) for each of the 26 populations in the phase 3 release of the 1000 genomes project. iHS were calculated using the hapbin program that can be downloaded from ...
    • A high resolution atlas of gene expression in the domestic sheep (Ovis aries) 

      Clark, 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.
      Sheep 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 ...
    • Identification of miRNAs associated with the follicular-luteal transition in the ruminant ovary 

      Clinton, Michael (University of Edinburgh. Roslin Institute, 2013-03-26)
      Little is known about the involvement of microRNAs (miRNAs) in the follicular-luteal transition. The aim of this study was to identify genome-wide changes in miRNAs associated with follicular differentiation in sheep. miRNA ...
    • The impact of acute loud noise on the behaviour of laboratory birds - data 

      Corbani, Tayanne; Healy, Susan; Martin, Jessica
      We examined whether exposure to a routine laboratory noise, a low-frequency fire alarm test, induced behavioural changes in laboratory zebra finches (Taeniopygia guttata). Twenty-four breeding pairs of zebra finches were ...
    • "Increased Abundance of M cells in the Gut Epithelium Dramatically Enhances Oral Prion Disease Susceptibility" 

      Donaldson, David S; Sehgal, Anuj; Rios, Daniel; Williams, Ifor R; Mabbott, Neil A
      Data supporting Donaldson et al "Increased Abundance of M cells in the Gut Epithelium Dramatically Enhances Oral Prion Disease Susceptibility" (In Submission).
    • The Infectious Diseases of East African Livestock (IDEAL) Project Database - Stable Snapshot 

      Callaby, Rebecca; Pendarovski, Cezar; Jennings, Amy; Thumbi, Samuel; Van Wyk, Ilana; Mbole-Kariuki, Mary; Kiara, Henry; Toye, Philip; Kemp, Steve; Hanotte, Olivier; Coetzer, Jacobus; Handel, Ian; Woolhouse, Mark; Bronsvoort, Barend
      The Infectious Diseases of East African Livestock (IDEAL) project was a longitudinal cohort study of calf health which was conducted in Western Kenya between 2007-2009. It collected information on 548 East African shorthorn ...
    • Investigating early cellular and molecular responses to misfolded protein 

      King, Declan
      PMDs such as AD, PD, HD and TSE are associated with the accumulation of abnormally folded proteins. However, the mechanisms involving seeding, processing and degradation of these rogue proteins are poorly understood. In ...
    • Jarvis Salmon QBA 

      Jarvis, Susan
      There is a growing scientific and legislative consensus that fish are sentient, and therefore have the capacity to experience pain and suffering. The assessment of the welfare of farmed fish is challenging due to the aquatic ...
    • lentiviral mediated apoE4 transduction in primary neuronal culture 

      Wishart, Thomas
      To identify the molecular changes in signalling pathways triggered by altered apoE4 expression, we used lentiviral transduction to overexpress human apoE4 in 18-21 DIV primary hippocampal neurons. The molecular consequences ...
    • Metagenome assembled rumen-uncultured genomes (RUGs) 

      Glendinning, Laura
      DNA was sequenced from rumen contents from cattle, sheep, red deer and reindeer. We constructed 391 metagenome assembled rumen-uncultured genomes (RUGs).
    • Microarray data CEL files supporting the paper "Microarray profiling emphasizes transcriptomic differences between hippocampal in vivo tissue and in vitro cultures" 

      King, Declan
      Affymetrix microarray processing produced 16 (4 WT cell, 4 101LL cell, 4 WT tissue, 4 101LL tissue) probe cell intensity data (CEL) files. Primary hippocampal cell cultures are routinely used as an experimentally accessible ...
    • A mini-atlas of gene expression for the domestic goat 

      Muriuki, Charity; Bush, Stephen J; Salavati, Mazdak; McCulloch, Mary EB; Lisowski, Zofia M; Agaba, Morris; Djikeng, Appolinaire; Hume, David A; Clark, Emily L
      The goat mini-atlas dataset includes 54 mRNA-Seq (poly-A selected) 75bp paired-end libraries from 20 tissues and 2 cell types from neonatal crossbred dairy goats. Gene level expression estimates, for the goat mini-atlas, ...
    • An mRNA expression atlas for the domestic chicken generated by the meta-analysis of RNA-seq datasets 

      Bush, Stephen J.; Freem, Lucy; MacCallum, Amanda; O'Dell, Jenny; Wu, Chunlei; Afrasiabi, Cyrus; Psifidi, Androniki; Stevens, Mark P.; Smith, Jacqueline; Hume, David A.
      The chicken (Gallus gallus) is widely used as a model in developmental biology and is also an important livestock species. We have created an mRNA expression atlas for the domestic chicken spanning major tissue types and ...