| QTL Map Information |
|---|
| Chromosome: | 25 |
| QTL Peak Location: | n/a |
| QTL Span: | n/a
27.9-27.9 (Mbp) |
 |
Upper, "Suggestive": | n/a |
| Upper, "Significant": | n/a |
| Peak: | rs456215468 |
| Lower, "Significant": | n/a |
| Lower, "Suggestive": | n/a |
| Marker type: | SNP |
| Analysis type: | Association |
| Model tested: | n/a |
| Test base: | Experiment-wise |
| Threshold significance level: | Significant |
 |
FDR | <0.01 | | Dominance effect: | n/a |
| Additive effect: | n/a |
| Associated Gene: | n/a |
| Cis/Trans acting type: |  |
| Links:
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| Extended information: |
|---|
| (none) |
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| QTL Experiment in Brief |
|---|
| Animals: | The dataset reported in this study consists of 124,364 New Zealand dairy cattle. These animals come from a mixed breed population of Holstein–Friesian (HF), Jersey (J), crosses with varying proportions of the two breeds (HFXJ), and HF or J crossbreeds with minor proportions of other breeds including Ayrshire, Brown Swiss, or Hereford (and other
crosses). |
| Breeds associated:
n/a
|
| Design: | Animals were genotyped using a variety of SNP arrays, with data imputed to whole-genome sequence, and GWAS was performed for milk traits. A total of 16,640,294 SNPs were used for analysis. |
| Analysis: | A non-additive GWAS approach was applied, using a two-step method that leaves-one-segment-out (LOSO) and fits all other genomic SNP effects among the 31,451 SNPs to adjust for population structure, and then applies a Markov chain Monte Carlo (MCMC) method to test
the effects of all imputed-to-sequence variants in the segment that had been left out, one at a time. |
| Software: | LINKPHASE3, Beagle 5.0, GCTA |
| Notes: | |
| Links: | Edit |
| Reference |
|---|
| Authors: | Reynolds EGM, Lopdell T, Wang Y, Tiplady KM, Harland CS, Johnson TJJ, Neeley C, Carnie K, Sherlock RG, Couldrey C, Davis SR, Harris BL, Spelman RJ, Garrick DJ, Littlejohn MD |
| Affiliation: | Massey University, Palmerston North, New Zealand |
| Title: | Non-additive QTL mapping of lactation traits in 124,000 cattle reveals novel recessive loci |
| Journal: | Genetics, Selection, Evolution : GSE, 2022, 54(1): 5 |
| Links: |
PubMed | Abstract | List all data
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