ArticleGenetics2014
Detecting structure of haplotypes and local ancestry.
Article in Genetics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 131 papers, 1 of them a synthesis that pooled it.
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Who cites it
131 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Fully exploiting SNP arrays: a systematic review on the tools to extract underlying genomic structure.Briefings in bioinformatics · 2022Pooled it
- Expanding CIRdb, a comprehensive catalog of whole-exome sequencing data of Canary Islanders.iScience · 2026Article
- Scalable high resolution ancestry deconvolution for genomic data.Nature communications · 2026Article
- Integrative Genomics Identifies Candidate Genes Underlying Trypanotolerance in Hybrid African Cattle.Evolutionary applications · 2026Article
- Admixture Increases Genetic Diversity and Adaptive Potential in Australasian Killer Whales.Molecular ecology · 2025Article
- A maize mutant in the glutamate receptor-like dwarf13 is modified by cis-acting natural variation and a cornichon homolog.PLoS genetics · 2025Article
- Genomic insights into the recent evolution and biodiversity of Italian sheep breeds.Mammalian genome : official journal of the International Mammalian Genome Society · 2025Article
- Admixture Mapping of Lipid Traits in Hispanic Americans.Journal of the American Heart Association · 2025Article
- Predicted deleterious mutations reveal the genetic architecture of male reproductive success in a lekking bird.Nature ecology & evolution · 2025Article
- Phase-free local ancestry inference mitigates the impact of switch errors on phase-based methods.G3 (Bethesda, Md.) · 2025Article
- Uncovering the architecture of production-driven introgression in Cinisara cattle breed.BMC genomic data · 2025Article
- CADET: Enhanced transcriptome-wide association analyses in admixed samples using eQTL summary data.American journal of human genetics · 2025Article
- An ancient origin of the naked grains of maize.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Abundant Parent-of-origin Effect eQTL: The Framingham Heart Study.bioRxiv : the preprint server for biology · 2025Article
- Potential Adaptive Introgression From Dogs in Iberian Grey Wolves (Canis lupus).Molecular ecology · 2025Article
- Pan-Genome Analysis Reveals Local Adaptation to Climate Driven by Introgression in Oak Species.Molecular biology and evolution · 2025Article
- Opportunities and challenges of local ancestry in genetic association analyses.American journal of human genetics · 2025Review
- APOE and Alzheimer's disease and related dementias risk among 12,221 Hispanics/Latinos.Alzheimer's & dementia : the journal of the Alzheimer's Association · 2025Article
- Ancient dog introgression into the Iberian wolf genome may have facilitated adaptation to human-dominated landscapes.Genome research · 2025Article
- Genomic Architecture of the Clownfish Hybrid Amphiprion leucokranos.Genome biology and evolution · 2025Article
71 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
1 author.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We present a two-layer hidden Markov model to detect the structure of haplotypes for unrelated individuals. This allows us to model two scales of linkage disequilibrium (one within a group of haplotypes and one between groups), thereby taking advantage of rich haplotype information to infer local ancestry of admixed individuals. Our method outperforms competing state-of-the-art methods, particularly for regions of small ancestral track lengths. Applying our method to Mexican samples in HapMap3, we found two regions on chromosomes 6 and 8 that show significant departure of local ancestry from the genome-wide average. A software package implementing the methods described in this article is freely available at http://bcm.edu/cnrc/mcmcmc.
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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.