To advance understanding of complex animal systems and the development of improved predictive models through the application of numerical and computational approaches in the analysis, interpretation, modelling and prediction of complex animal systems from the level of the DNA and other molecules, through cellular and gene networks, tissues and organs to whole organisms and interacting populations of organisms.

Image: Detail from Fig. 1 of Regan et al.(2018) which uses data from: Regan, Tim; Freeman, Tom; Barnett, Mark. (2018). Characterisation of the UK honey bee metagenome, 2016-2017 [dataset]. The Roslin Institute. University of Edinburgh. https://doi.org/10.7488/ds/2453.

Items in this Collection

  • Simulated metagenomic dataset for Smith et al. 2022 

    Smith, Rebecca; Watson, Mick
    This dataset is simulated metagenomic data created by Rebecca (Becky) Smith, PhD student at the Roslin Institute in Mick Watson's group. This data is described in detail in Smith et al. 2022, but briefly these reads were ...
  • GenOMICC release 3 

    Pairo-Castineira, Erola; Rawlik, Konrad; Baillie, Kenneth
    Here, we provide an updated analysis of the international GenOMICC study comprising a combination of microarray genotype data from 11,325 critically ill cases in the UK (9,279 cases) and Brazil (2,186), combined with ...
  • GenOMICC WGS summary statistics 

    Pairo-Castineira, Erola; Baillie, J Kenneth; Kousathanas, Athanasios; Caufield, Mark J
    GWAS summary statistics from 7,491 critically ill patients from COVID-19 and 48,400 population controls: European(EUR) 5,989/42,891; South Asian(SAS) 788/3,793; African(AFR) 440/1,350; East Asian(EAS) 274/366. GWAS models ...
  • SUPERSEDED - GenOMICC WGS summary statistics 

    Pairo-Castineira, Erola; Bailie, J. Kenneth; Kousathanas, Athanasios; Caufield, Mark J.
    ## This item has been replaced by the one which can be found at https://doi.org/10.7488/ds/3411 ## GWAS summary statistics from 7,491 critically ill patients from COVID-19 and 48,400 population controls: European(EUR) ...
  • Breeding strategies for integrating new and orphan crops in production systems 

    Bancic, Jon; Dawson, Ian; Gorjanc, Gregor; Hoad, Steve; Odeny, Damaris; Ojulong, Henry; Hickey, John
    25/11/2021 Author: Jon Bancic Contact: jon.bancic@gmail.com Dataset consists of R scripts and datasets used for the analysis in Chapter 2, 3, 4 of my thesis. Each research chapter has its own directory and ...
  • OTU table: Caecal microbiota transplantation between two different chicken broiler lines 

    Glendinning, Laura
    Table describing the abundance of OTUs in samples from chicken (Ross 308) caecal samples and controls (OTUs.shared). Table describing the taxonomy of each OTU present in OTUs.shared (OTUs.taxonomy). Chickens received either ...
  • A Populations Genetics Analysis of the United Kingdom's Non-Pedigree Cats 

    Irving-McGrath, Jenni
    This study investigated the population genetics of 1290 UK cats.
  • Minion Equine Grass Sickness Gastrointestinal Mycobiota 

    Glendinning, Laura
    Minion sequencing and analysis of a gastrointestinal sample from a horse with equine grass sickness (EGS). EGS is a multiple systems neuropathy of grazing horses. To identify potential causal fungi of EGS the gastrointestinal ...
  • 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 ...
  • Whole genome sequencing SNP data of honey bee drones 

    Wragg, David
    Genotype data from processing of whole genome sequence data for 689 honey bee drones representing samples from 14 countries and 7 subspecies.
  • Boran BovineHD SNP data 

    Prendergast, James
    BovineHD SNP (single nucleotide polymorphism) data for 82 Boran cattle.
  • 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 ...
  • 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
  • 2020_Thesis_SupplementaryData_s1569052_Tissue-resident immune cells in health and disease: their heterogeneity and associated gene signatures 

    Patir, Anirudh; Freeman, Tom; McColl, Barry
    The dataset includes supplementary figures and tables in support of the University of Edinburgh thesis titled "Tissue-resident immune cells in health and disease: their heterogeneity and associated gene signatures".
  • XP-EHH and XP-CLR scores across water buffalo and cattle breeds 

    Prendergast, James; Dutta, Prasun; Talenti, Andrea
    This dataset consists of XP-EHH and XP-CLR scores calculated using the hapbin (https://github.com/evotools/hapbin) and xpclr (https://github.com/hardingnj/xpclr) software with default parameters across 79 water buffalo and ...
  • 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 ...
  • A comparison of livestock movement network-methods and implications for disease control in developing countries 

    Muwonge, Adrian; Bessell, Paul; Porphyre, Thibaud; Motta, Paolo; Rydevik, Gustaf; Devailly, Guillaume; Egbe, Franklyn; Kelly, Robert; Handel, Ian; Mazeri, Stella; Bronsvoort, Mark
    The use of network analysis to support livestock disease control in low middle-income countries (LMICs) has historically been hampered by the cost of generating empirical data in the absence of animal movement recording ...
  • A putative genomic map for resistance of Bos indicus cattle in Cameroon to bovine tuberculosis 

    Callaby, Rebecca; Kelly, Robert; Mazeri, Stella; Egbe, Franklyn; Benedictus, Lindert; Clark, Emily; Doeschl-Wilson, Andrea; Bronsvoort, Barend; Salavati, Mazdak; Muwonge, Adrian
    Bovine Tuberculosis (bTB) caused by Mycobacterium bovis is a livestock disease of global economic and public health importance. There are currently no effective vaccines available for livestock and so control relies on ...
  • SUPERSEDED - Water buffalo and cattle XPEHH scores across breeds 

    Prendergast, James; Dutta, Prasun; Talenti, Andrea
    ## SUPERSEDED - This dataset has been replaced by the one which can be found at https://doi.org/10.7488/ds/2849 . ## This dataset consists of XP-EHH scores calculated using the hapbin software (https://github.com/evotools/hapbin) ...
  • 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).

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