Browsing Genetics and Genomics by Date Accessioned
Now showing items 1-20 of 49
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hapbin: An efficient program for performing haplotype based scans for positive selection in large genomic datasets
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 ... -
Spreadsheet for Sample Size Calculation
Spreadsheet to estimate sample size. Alternatively power or the difference to detect (delta) may be obtained for a given sample size. Covers situations with different variability for groups and different group sizes. ... -
Datasets of genes expressed in the mouse nervous system
Data supporting paper Summers K et al (In Submission). -
SUPERSEDED - Assembly of hundreds of microbial genomes from the cow rumen reveals novel microbial species encoding enzymes with roles in carbohydrate metabolism
## This item has been replaced by the one which can be found at https://doi.org/10.7488/ds/2296. ## The cow rumen is a specialised organ adapted for the efficient breakdown of plant material into energy and nutrients, ... -
A high resolution atlas of gene expression in the domestic sheep (Ovis aries)
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 ... -
An mRNA expression atlas for the domestic chicken generated by the meta-analysis of RNA-seq datasets
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 ... -
SUPERSEDED - Hi-C genomes from "Assembly of hundreds of microbial genomes from the cow rumen reveals novel microbial species encoding enzymes with roles in carbohydrate metabolism"
## This item has been replaced by the one which can be found at https://doi.org/10.7488/ds/2296. ## The cow rumen is a specialised organ adapted for the efficient breakdown of plant material into energy and nutrients, ... -
Assembly and validation of conserved long non-coding RNAs in the ruminant transcriptome
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 ... -
Unique placeholder IDs for each gene, transcript and exon model in the "UMD CASPUR WD 2.0" annotation of the water buffalo (Bubalis bubalis) genome assembly
The "UMD CASPUR WD 2.0" annotation of the water buffalo (Bubalis bubalis) genome assembly, as published by Williams, et al. (PMCID: PMC5737279), does not yet have a standardised set of placeholder IDs for each gene, ... -
Sex, diet density and feeding centre gene expression
# Abstract # ## Background ## Research into energy balance and growth has infrequently considered genetic sex, yet there is sexual dimorphism for growth across the animal kingdom. We test the hypothesis that sexual ... -
Assembly of 913 microbial genomes from metagenomic sequencing of the cow rumen
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 ... -
Genome-wide pleiotropy and shared biological pathways for resistance to bovine pathogens
A README.txt file was uploaded with the data. -
Comprehensive transcriptional profiling of the gastrointestinal tract of ruminants from birth to adulthood
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 ... -
Assemblies of the gyr falcon
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 ... -
An ADAMTS3 Missense Variant is Associated with Norwich Terrier Upper Airway Syndrome - Supporting Data
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. -
Border Collie array data for 58 dogs from Illumina 170k CanineHD BeadChip
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. ... -
Open prediction of polysaccharide utilisation loci (PUL) in 5414 public Bacteroidetes genomes using PULpy
Polysaccharide utilisation loci (PUL) are regions within the genomes of Bacteroidetes that encode all the necessary machinery for the cleavage of particular carbohydrates. Prediction of PUL from genomic data alone involves ... -
Characterisation of the UK honey bee metagenome
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 ... -
The genomic and proteomic landscape of the rumen microbiome revealed by comprehensive genome-resolved metagenomics
"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, ... -
De novo gene and transcript models created for a gene expression atlas of the domestic water buffalo (Bubalus bubalis)
The domestic water buffalo (Bubalus bubalis) makes a major contribution to the global agricultural economy in the form of milk, meat, hides and draught power. The global water buffalo population is predominantly found in ...
