ArticlePLoS genetics2017
Composite likelihood method for inferring local pedigrees.
Article in PLoS genetics, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed.
- Fault-tolerant pedigree reconstruction from pairwise kinship relations.Bioinformatics (Oxford, England) · 2026Article
- COMPADRE: Combined pedigree-aware distant relatedness estimation for improved pedigree reconstruction.American journal of human genetics · 2025Article
- Article
- CORRECTING MODEL MISSPECIFICATION IN RELATIONSHIP ESTIMATES.bioRxiv : the preprint server for biology · 2024Article
- Reconstructing parent genomes using siblings and other relatives.bioRxiv : the preprint server for biology · 2024Article
- The genetic legacy of African Americans from Catoctin Furnace.Science (New York, N.Y.) · 2023Article
- Bonsai: An efficient method for inferring large human pedigrees from genotype data.American journal of human genetics · 2021Article
- Distinguishing pedigree relationships via multi-way identity by descent sharing and sex-specific genetic maps.American journal of human genetics · 2021Article
- Genetic diversity, viability and conservation value of the global captive population of the Moroccan Royal lions.PloS one · 2021Article
- Crossover interference and sex-specific genetic maps shape identical by descent sharing in close relatives.PLoS genetics · 2019Article
- Joint Estimation of Pedigrees and Effective Population Size Using Markov Chain Monte Carlo.Genetics · 2019Article
- Fast and accurate relatedness estimation from high-throughput sequencing data in the presence of inbreeding.GigaScience · 2019Article
- Animal models with group-specific additive genetic variances: extending genetic group models.Genetics, selection, evolution : GSE · 2019Article
- Inferring Identical-by-Descent Sharing of Sample Ancestors Promotes High-Resolution Relative Detection.American journal of human genetics · 2018Article
- Profiling and Leveraging Relatedness in a Precision Medicine Cohort of 92,455 Exomes.American journal of human genetics · 2018Article
- Benchmarking Relatedness Inference Methods with Genome-Wide Data from Thousands of Relatives.Genetics · 2017Article
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2 authors.
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Abstract
Pedigrees contain information about the genealogical relationships among individuals and are of fundamental importance in many areas of genetic studies. However, pedigrees are often unknown and must be inferred from genetic data. Despite the importance of pedigree inference, existing methods are limited to inferring only close relationships or analyzing a small number of individuals or loci. We present a simulated annealing method for estimating pedigrees in large samples of otherwise seemingly unrelated individuals using genome-wide SNP data. The method supports complex pedigree structures such as polygamous families, multi-generational families, and pedigrees in which many of the member individuals are missing. Computational speed is greatly enhanced by the use of a composite likelihood function which approximates the full likelihood. We validate our method on simulated data and show that it can infer distant relatives more accurately than existing methods. Furthermore, we illustrate the utility of the method on a sample of Greenlandic Inuit.
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