Data from: Functional confirmation of PLAG1 as the candidate causative gene underlying major pleiotropic effects on body weight and milk characteristics

Fink T, Tiplady K, Lopdell T, Johnson T, Snell RG, Spelman RJ, Davis SR, Littlejohn MD

Date Published: July 14, 2017

DOI: http://dx.doi.org/10.5061/dryad.r8251

 

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Title Milk Composition Phenotype Data
Downloaded 7 times
Description Milk composition records were measured as part of standard herd testing procedures. Abbreviations used: id = animal identification, sire = sire animal identification, pgsire = parternal sire animal identification, pmgsire = partern fr = friesian, je = jersey, hol = holestein, FxJ = freisian x jersey, FxH = freisian x holestein, JxH = jersey x holestein, fat = fat yield, fat_pct = fat percentage, milk = milk yield, prot = protein, prot_pct = protein percentage, ydlwt = liveweight
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Title Gene Expression Data
Downloaded 6 times
Description Gene expression data for genes at the chromosome 14 liveweight locus from lactating mammary tissue biopsies. RNAseq read counts have been normalised using variance-stabilisation transformation. Abbreviations used: id = animal identification, sire = sire animal identification, pgsire = parternal sire animal identification, pmgsire = partern fr = friesian, je = jersey, hol = holestein, FxJ = freisian x jersey, FxH = freisian x holestein, JxH = jersey x holestein,
Download eQTLdata_for_papersubmission.xlsx (68.97 Kb)
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Title Animal Genotypes for eQTL analysis at liveweight locus
Downloaded 11 times
Description Animal genotypes for the 432 Illumina BovineHD BeadChip markers at the chromosome 14 liveweight locus. Animals were genotyped using this panel directly, apart from 29 animals which were genotyped using the Illumina BovineSNP50 and imputed up to the HDChip density using Beagle. These genotypes were used for association analysis with gene expression phenotypes from the lactating mammary tissue biospies. PLINK was used to recode the genotypes to 0,1,2 to represent the number of alternative allele copies for each marker. anml_id = anonymised animal identification
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Title Animal Genotypes for milk production analysis at liveweight locus
Downloaded 7 times
Description Animal genotypes for the 432 Illumina BovineHD BeadChip markers at the chromosome 14 liveweight locus. Animals were genotyped either using this panel directly, or were genotyped using the Illumina BovineSNP50 and imputed to the HDChip markers using Beagle. These genotypes were used for association analysis with milk production phenotypes generated as part of standard herd test procedures. PLINK was used to recode the genotypes to 0,1,2 to represent the number of alternative allele copies for each marker. anml_id = anonymised animal identification
Download milkcompgens.xlsx (56.36 Mb)
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When using this data, please cite the original publication:

Fink T, Tiplady K, Lopdell T, Johnson T, Snell RG, Spelman RJ, Davis SR, Littlejohn MD (2017) Functional confirmation of PLAG1 as the candidate causative gene underlying major pleiotropic effects on body weight and milk characteristics. Scientific Reports 7: 44793. http://dx.doi.org/10.1038/srep44793

Additionally, please cite the Dryad data package:

Fink T, Tiplady K, Lopdell T, Johnson T, Snell RG, Spelman RJ, Davis SR, Littlejohn MD (2017) Data from: Functional confirmation of PLAG1 as the candidate causative gene underlying major pleiotropic effects on body weight and milk characteristics. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.r8251
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