ArticleGenetics2007
A primary assembly of a bovine haplotype block map based on a 15,036-single-nucleotide polymorphism panel genotyped in holstein-friesian cattle.
Article in Genetics, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers.
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Who cites it
30 citing papers in PubMed, 84 citations in OpenAlex.
- Article
- Genetic Variability of Methane Production and Concentration Measured in the Breath of Polish Holstein-Friesian Cattle.Animals : an open access journal from MDPI · 2021Article
- Article
- Whole Genome Linkage Disequilibrium and Effective Population Size in a Coho Salmon (Frontiers in genetics · 2019Article
- Genome-wide scan for commons SNPs affecting bovine leukemia virus infection level in dairy cattle.BMC genomics · 2018Article
- Estimation of linkage disequilibrium and analysis of genetic diversity in Korean chicken lines.PloS one · 2018Article
- Haplotype-based genome-wide association study identifies loci and candidate genes for milk yield in Holsteins.PloS one · 2018Article
- Genomic population structure and prevalence of copy number variations in South African Nguni cattle.BMC genomics · 2015Article
- Targeted Analysis Reveals an Important Role of JAK-STAT-SOCS Genes for Milk Production Traits in Australian Dairy Cattle.Frontiers in genetics · 2015Article
- Impact of whole-genome amplification on the reliability of pre-transfer cattle embryo breeding value estimates.BMC genomics · 2014Article
- Linkage disequilibrium and haplotype block structure in a composite beef cattle breed.BMC genomics · 2014Article
- Strategies and utility of imputed SNP genotypes for genomic analysis in dairy cattle.BMC genomics · 2012Article
- Article
- Mapping of a milk production quantitative trait locus to a 1.056 Mb region on bovine chromosome 5 in the Fleckvieh dual purpose cattle breed.Genetics, selection, evolution : GSE · 2011Article
- Assignment of chromosomal locations for unassigned SNPs/scaffolds based on pair-wise linkage disequilibrium estimates.BMC bioinformatics · 2010Article
- A comparison of five methods to predict genomic breeding values of dairy bulls from genome-wide SNP markers.Genetics, selection, evolution : GSE · 2009Article
- Depauperate genetic variability detected in the American and European bison using genomic techniques.Biology direct · 2009Article
- Discovery of novel genetic networks associated with 19 economically important traits in beef cattle.International journal of biological sciences · 2009Article
- Article
- High-resolution haplotype block structure in the cattle genome.BMC genetics · 2009Article
Corrections and comments
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Authors and funding
12 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Analysis of data on 1000 Holstein-Friesian bulls genotyped for 15,036 single-nucleotide polymorphisms (SNPs) has enabled genomewide identification of haplotype blocks and tag SNPs. A final subset of 9195 SNPs in Hardy-Weinberg equilibrium and mapped on autosomes on the bovine sequence assembly (release Btau 3.1) was used in this study. The average intermarker spacing was 251.8 kb. The average minor allele frequency (MAF) was 0.29 (0.05-0.5). Following recent precedents in human HapMap studies, a haplotype block was defined where 95% of combinations of SNPs within a region are in very high linkage disequilibrium. A total of 727 haplotype blocks consisting of > or =3 SNPs were identified. The average block length was 69.7 +/- 7.7 kb, which is approximately 5-10 times larger than in humans. These blocks comprised a total of 2964 SNPs and covered 50,638 kb of the sequence map, which constitutes 2.18% of the length of all autosomes. A set of tag SNPs, which will be useful for further fine-mapping studies, has been identified. Overall, the results suggest that as many as 75,000-100,000 tag SNPs would be needed to track all important haplotype blocks in the bovine genome. This would require approximately 250,000 SNPs in the discovery phase.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.