ArticleBMC genomics2018
Assessing runs of Homozygosity: a comparison of SNP Array and whole genome sequence low coverage data.
Article in BMC genomics, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 88 papers, 1 of them a synthesis that pooled it.
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Who cites it
88 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Human genetic diversity across South Asian populations: A systematic review and meta-analysis.Medicine · 2025Pooled it
- Low-pass whole-genome sequencing reveals genomic diversity and ecotype-specific adaptation in indigenous Tigrayan chickens.Scientific reports · 2026Article
- A Whole-Genome Sequence Genome-Wide Association Study inOphthalmology science · 2026Article
- Genome-wide comparison of traditional and commercial Mehraban sheep populations reveals differences in genetic structure, linkage disequilibrium, and inbreeding patterns.BMC genomics · 2026Article
- Genomic partitioning and functional dissection of inbreeding depression for stature in Brown Swiss cattle.Genetics, selection, evolution : GSE · 2026Article
- An increased number of heterozygous calls in the AxiomTM Equine Genotyping Array.G3 (Bethesda, Md.) · 2026Article
- A large mass grave from the Early Iron Age indicates selective violence towards women and children in the Carpathian Basin.Nature human behaviour · 2026Article
- Linkage- and ROH-based genomic relationship matrices for IBD based management of genetic diversity.Genetics, selection, evolution : GSE · 2026Article
- Host immunogenetic variation and gut microbiome functionality in a wild vertebrate population.Microbiome · 2026Article
- A Dominant Founder Lineage Has Possible Fitness Costs for the Endangered Mexican Grey Wolf.Molecular ecology · 2026Article
- A comprehensive genomic characterization of Nellore cattle.BMC genomics · 2026Article
- Haplotype-aware segmentation with HapASeg increases accuracy of detecting homolog-specific somatic copy number alterations.Genome biology · 2026Article
- A genome-structure adaptive framework for ROH-based inbreeding estimation in Penaeus vannamei.Scientific reports · 2026Article
- Population genomics of Nigerian goat breeds and neighbouring populations in the West Africa-Cameroon transboundary livestock corridor.PloS one · 2026Article
- Accurate Runs of Homozygosity Estimation From Low Coverage Genome Sequences in Non-Model Species.Molecular ecology resources · 2026Article
- Analysis of Inbreeding Coefficient and Genetic Diversity in Xinjiang Brown Cattle Based on Pedigree and ROH Evaluation.Animals : an open access journal from MDPI · 2025Article
- Admixture Increases Genetic Diversity and Adaptive Potential in Australasian Killer Whales.Molecular ecology · 2025Article
- Regional autozygosity association with albumin-to-creatinine ratio reveals a novel FTO region in an Indigenous Australian population.European journal of human genetics : EJHG · 2025Article
- Article
- Whole-genome resequencing uncovers population structure and candidate molecular markers for litter size in hetian sheep.BMC genomics · 2025Article
28 more citing papers are in PubMed but not listed here.
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundRuns of Homozygosity (ROH) are genomic regions where identical haplotypes are inherited from each parent. Since their first detection due to technological advances in the late 1990s, ROHs have been shedding light on human population history and deciphering the genetic basis of monogenic and complex traits and diseases. ROH studies have predominantly exploited SNP array data, but are gradually moving to whole genome sequence (WGS) data as it becomes available. WGS data, covering more genetic variability, can add value to ROH studies, but require additional considerations during analysis.
resultsUsing SNP array and low coverage WGS data from 1885 individuals from 20 world populations, our aims were to compare ROH from the two datasets and to establish software conditions to get comparable results, thus providing guidelines for combining disparate datasets in joint ROH analyses. By allowing heterozygous SNPs per window, using the PLINK homozygosity function and non-parametric analysis, we were able to obtain non-significant differences in number ROH, mean ROH size and total sum of ROH between data sets using the different technologies for almost all populations.
conclusionsBy allowing 3 heterozygous SNPs per ROH when dealing with WGS low coverage data, it is possible to establish meaningful comparisons between data using SNP array and WGS low coverage technologies.
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