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      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".
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      An ADAMTS3 Missense Variant is Associated with Norwich Terrier Upper Airway Syndrome - Supporting Data 

      Marchant, Thomas; Dietschi, Elisabeth; Rytz, Ulrich; Schawalder, Peter; Hadji Rasouliha, Sheida; Harrington, Ronan S; Drögemüller, Michaela; Kidd, Jeffrey; Ostrander, Elaine A; Warr, Amanda; Watson, Mick; Argyle, David; Ter Haar, Gert; Clements, Dylan N; Leeb, Tosso; Schoenebeck, Jeffrey J
      This dataset comprises of Variant Call Format (VCF) files associated with the BAM files in this publication. The full BAM files will be submitted to European Nucleotide Archive.
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      Assemblies of the gyr falcon 

      Griffin, Darren; Watson, Mick
      Whole genome assemblies are crucial for understanding a wide range of aspects of falcon biology including morphology, ecology and physiology and thus essential for their care and conservation. A key aspect of the genome ...
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      Assembly and validation of conserved long non-coding RNAs in the ruminant transcriptome 

      Bush, Stephen J; Muriuki, Charity; McCulloch, Mary E. B.; Farquhar, Iseabail L.; Clark, Emily L.; Hume, David A.
      mRNA-like long non-coding RNAs (lncRNA) are a significant component of mammalian transcriptomes, although most are expressed only at low levels, with high tissue-specificity and/or at specific developmental stages. This ...
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      Assembly of 913 microbial genomes from metagenomic sequencing of the cow rumen 

      Watson, Mick
      This dataset represents 913 draft bacterial and archaeal genomes assembled from over 800 gigabases of rumen metagenomic sequence data derived from 43 Scottish cattle, using both metagenomic binning and Hi-C-based ...
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      Boran BovineHD SNP data 

      Prendergast, James
      BovineHD SNP (single nucleotide polymorphism) data for 82 Boran cattle.
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      Border Collie array data for 58 dogs from Illumina 170k CanineHD BeadChip 

      Summers, Kim; Pugh, Carys; Carlisle, Ailsa
      Goniodysgenesis is a developmental abnormality of the anterior chamber of the eye. It is generally considered to be congenital in dogs (Canis lupus familiaris), and has been associated with glaucoma and blindness. ...
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      Canine medial coronoid process disease microarray data 

      Johnson, Craig; Clements, Dylan
      The objective of this study was to identify differentially expressed genes associated with the process of medial coronoid process disease, primary to the development of osteoarthritis. The data were produced using Affymetrix ...
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      Characterisation of a second gain of function EDAR variant, encoding EDAR380R, in East Asia 

      Schoenebeck, Jeffrey; Riddell, Jon; Headon, Denis
      Bash scripts, R scripts, rehh output data.
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      Characterisation of the UK honey bee metagenome 

      Regan, Tim; Freeman, Tom; Barnett, Mark
      The European honey bee (Apis mellifera) plays a major role in pollination and food production, but is under threat from emerging pathogens and agro-environmental insults. As with other organisms, honey bee health is a ...
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      Chicken cecal metagenome assembled genomes 

      Glendinning, Laura; Watson, Kellie; Pallen, Mark; Stewart, Robert; Watson, Mick
      We sequenced DNA from cecal contents samples taken from 24 chickens belonging to either a fast or slower growing breed consuming either a vegetable-only diet or a diet containing fish meal. We utilised 1.6T of Illumina ...
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      CKCS CEL data 

      Markby, Greg
      The dataset is microrarray data collected from canine RNA samples. The experimental design of this project is to perform comparative analysis (unpaired one-way ANOVA) between normal canine mitral valves, late stage Myxomatous ...
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      Comparative profiling of murine CLN1 Thalamus and Cortex at early and late disease timepoints 

      Wishart, Thomas
      CLN1 disease or Infantile neuronal ceroid lipofuscinosis is a fatal inherited neurodegenerative lysosomal storage disease of early childhood with no currently available therapy. CLN1 disease is caused by mutations in the ...
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      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 ...
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      Comprehensive transcriptional profiling of the gastrointestinal tract of ruminants from birth to adulthood 

      Bush, Stephen J.; McCulloch, Mary E. B.; Muriuki, Charity; Salavati, Mazdak; Davis, Gemma M.; Farquhar, Iseabail L.; Lisowski, Z. M.; Archibald, Alan L.; Hume, D. A.; Clark, E. L.
      One of the most significant physiological challenges to neonatal and juvenile ruminants is the development and establishment of the rumen. Using a subset of RNA-Seq data from our high-resolution atlas of gene expression ...
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      Construction of OOEP_IVT, OOEP_CAG, OOEP_VASA and ROSA26_gRNAs plasmids 

      McFarlane, Gus
      These pdf files outline the construction of the four CRISPR/Cas9 gene drive DNA plasmid constructs developed during Gus McFarlane's PhD (2016 to 2020). These files provide important supplementary information to his PhD ...
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      Cow genotypes before quality control in PLINK format. Dataset pertains to manuscript "Quantitative trait loci mapping for lameness associated phenotypes in Holstein Friesian dairy cattle" 

      Sanchez Molano, Enrique
      Cow genotypes in PLINK format before quality control used for a GWAS study of lameness associated phenotypes in Holstein Friesian dairy cattle. Genotypes were merged from Affymetrix and Illumina SNP chips.
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      Cyclic compression of canine joint cells - microarray data 

      Johnson, Craig; Clements, Dylan
      Cells are agarose embedded and cyclically compressed on FXC compression bioreactor for 4 hours followed by 24 hours of recovery incubation. RNA extracted according to Bougault et al (2008) and canine microarray performed
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      Cytokine stimulation of canine chondrocytes and osteoblasts 

      Johnson, Craig; Clements, Dylan
      In vitro modelling of osteoarthritis typically uses cytokines to induce a catabolic phenotype in joint cells. This model was used to identify the response to a cytokine parameter identified as most representative of early ...
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      Data for "Pathogen transmission from vaccinated hosts can cause dose-dependent reduction in virulence" 

      Dunn, John R; Cheng, Hans H; Doeschl-Wilson, Andrea; Bailey, Richard I; Chase-Topping, Margo; Mays, Jody; Anacleto, Osvaldo
      # Abstract # Many livestock and increasingly human vaccines are leaky, blocking symptoms without preventing infection or onward transmission. Leakiness is concerning as it increases vaccination coverage required to ...
       

       

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