Relevant bibliographies by topics / Genetic admixture model

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  2. Dissertations / Theses
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  4. Conference papers

Academic literature on the topic 'Genetic admixture model'

Author: Grafiati
Published: 5 June 2025
Last updated: 2 August 2025

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Journal articles on the topic "Genetic admixture model"

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Wu, Yufeng. "Inference of population admixture network from local gene genealogies: a coalescent-based maximum likelihood approach." Bioinformatics 36, Supplement_1 (2020): i326—i334. http://dx.doi.org/10.1093/bioinformatics/btaa465.

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Abstract Motivation Population admixture is an important subject in population genetics. Inferring population demographic history with admixture under the so-called admixture network model from population genetic data is an established problem in genetics. Existing admixture network inference approaches work with single genetic polymorphisms. While these methods are usually very fast, they do not fully utilize the information [e.g. linkage disequilibrium (LD)] contained in population genetic data. Results In this article, we develop a new admixture network inference method called GTmix. Differ
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Deng, Hong-Wen. "Population Admixture May Appear to Mask, Change or Reverse Genetic Effects of Genes Underlying Complex Traits." Genetics 159, no. 3 (2001): 1319–23. http://dx.doi.org/10.1093/genetics/159.3.1319.

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Abstract Association studies using random population samples are increasingly being applied in the identification and inference of genetic effects of genes underlying complex traits. It is well recognized that population admixture may yield false-positive identification of genetic effects for complex traits. However, it is less well appreciated that population admixture can appear to mask, change, or reverse true genetic effects for genes underlying complex traits. By employing a simple population genetics model, we explore the effects and the conditions of population admixture in masking, cha
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Madbouly, Abeer, Tao Wang, Mark Albrecht, et al. "Investigating Effect of Genetic Admixture and Donor/Recipient Genetic Disparity on Transplant Outcomes." Blood 126, no. 23 (2015): 3229. http://dx.doi.org/10.1182/blood.v126.23.3229.3229.

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Abstract Aim Survival after hematopoietic cell transplantation (HCT) is dependent on donor/recipient (D/R) HLA matching. However disparities in survival were reported for some ethnicities despite comparable HLA matching. Individual ethnicities/races, as reported through self-identification, can change over time. Most studies have shown that African-American recipients (AAFA race) experience worse survival. Another way to investigate ancestry is to use Ancestry Informative Marker SNPs (AIMs), providing ancestral admixture. We hypothesized that information on donor and recipient genetic admixtur
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Mimno, David, David M. Blei, and Barbara E. Engelhardt. "Posterior predictive checks to quantify lack-of-fit in admixture models of latent population structure." Proceedings of the National Academy of Sciences 112, no. 26 (2015): E3441—E3450. http://dx.doi.org/10.1073/pnas.1412301112.

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Admixture models are a ubiquitous approach to capture latent population structure in genetic samples. Despite the widespread application of admixture models, little thought has been devoted to the quality of the model fit or the accuracy of the estimates of parameters of interest for a particular study. Here we develop methods for validating admixture models based on posterior predictive checks (PPCs), a Bayesian method for assessing the quality of fit of a statistical model to a specific dataset. We develop PPCs for five population-level statistics of interest: within-population genetic varia
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Shchur, Vladimir, Jesper Svedberg, Paloma Medina, Russell Corbett-Detig, and Rasmus Nielsen. "On the Distribution of Tract Lengths During Adaptive Introgression." G3: Genes|Genomes|Genetics 10, no. 10 (2020): 3663–73. http://dx.doi.org/10.1534/g3.120.401616.

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Admixture is increasingly being recognized as an important factor in evolutionary genetics. The distribution of genomic admixture tracts, and the resulting effects on admixture linkage disequilibrium, can be used to date the timing of admixture between species or populations. However, the theory used for such prediction assumes selective neutrality despite the fact that many famous examples of admixture involve natural selection acting for or against admixture. In this paper, we investigate the effects of positive selection on the distribution of tract lengths. We develop a theoretical framewo
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Karacaören, Burak. "Empirical comparison of association and admixture mapping for body weight using F<sub>2</sub> mice data set." Archives Animal Breeding 57, no. 1 (2014): 1–6. http://dx.doi.org/10.7482/0003-9438-57-005.

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Abstract. Recent advances in molecular genetics have provided hundreds of thousands of single nucleotide polymorphisms (SNPs) to detect mutations in genes related with complex traits. Undetected shared ancestry within samples of individuals could lead to the detection of false genomic signals in association mapping. Pedigree-based relationship matrices or genomic relationship matrices could be used in a mixed model to predict and correct for genetic stratifications. Genotypic information of founder populations could also be used to explore patterns of inheritance for complex traits by admixtur
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Grote, Mark N. "A Covariance Structure Model for the Admixture of Binary Genetic Variation." Genetics 176, no. 4 (2007): 2405–20. http://dx.doi.org/10.1534/genetics.107.071779.

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Prendergast, Mary E., Mark Lipson, Elizabeth A. Sawchuk, et al. "Ancient DNA reveals a multistep spread of the first herders into sub-Saharan Africa." Science 365, no. 6448 (2019): eaaw6275. http://dx.doi.org/10.1126/science.aaw6275.

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How food production first entered eastern Africa ~5000 years ago and the extent to which people moved with livestock is unclear. We present genome-wide data from 41 individuals associated with Later Stone Age, Pastoral Neolithic (PN), and Iron Age contexts in what are now Kenya and Tanzania to examine the genetic impacts of the spreads of herding and farming. Our results support a multiphase model in which admixture between northeastern African–related peoples and eastern African foragers formed multiple pastoralist groups, including a genetically homogeneous PN cluster. Additional admixture w
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Bhattacharjee, Ranjana, Paterne Agre, Guillaume Bauchet, et al. "Genotyping-by-Sequencing to Unlock Genetic Diversity and Population Structure in White Yam (Dioscorea rotundata Poir.)." Agronomy 10, no. 9 (2020): 1437. http://dx.doi.org/10.3390/agronomy10091437.

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White yam (Dioscorearotundata Poir.) is one of the most important tuber crops in West Africa, where it is indigenous and represents the largest repository of biodiversity through several years of domestication, production, consumption, and trade. In this study, the genotyping-by-sequencing (GBS) approach was used to sequence 814 genotypes consisting of genebank landraces, breeding lines, and market varieties to understand the level of genetic diversity and pattern of the population structure among them. The genetic diversity among different genotypes was assessed using three complementary clus
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Chikhi, Lounès, Michael W. Bruford, and Mark A. Beaumont. "Estimation of Admixture Proportions: A Likelihood-Based Approach Using Markov Chain Monte Carlo." Genetics 158, no. 3 (2001): 1347–62. http://dx.doi.org/10.1093/genetics/158.3.1347.

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Abstract When populations are separated for long periods and then brought into contact for a brief episode in part of their range, this can result in genetic admixture. To analyze this type of event we considered a simple model under which two parental populations (P1 and P2) mix and create a hybrid population (H). After that event, the three populations evolve under pure drift without exchange during T generations. We developed a new method, which allows the simultaneous estimation of the time since the admixture event (scaled by the population size ti = T/Ni, where Ni is the effective popula
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Dissertations / Theses on the topic "Genetic admixture model"

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Hsieh, PingHsun. "Model-Based Population Genetics in Indigenous Humans: Inferences of Demographic History, Adaptive Selection, and African Archaic Admixture using Whole-Genome/Exome Sequencing Data." Diss., The University of Arizona, 2016. http://hdl.handle.net/10150/612540.

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Reconstructing the origins and evolutionary journey of humans is a central piece of biology. Complementary to archeology, population genetics studying genetic variation among individuals in extant populations has made considerable progress in understanding the evolution of our species. Particularly, studies in indigenous humans provide valuable insights on the prehistory of humans because their life history closely resembles that of our ancestors. Despite these efforts, it can be difficult to disentangle population genetic inferences because of the interplay among evolutionary forces, includin
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James, Kyle. "DNA-MAP, a knowledge-based decision support system for Australian Defence Force forensic ancestry prediction." Thesis, Queensland University of Technology, 2021. https://eprints.qut.edu.au/213211/1/Kyle_James_Thesis.pdf.

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Development of a Knowledge-Based Decision Support System to predict ancestry of the remains of missing World War Two soldiers in South-East Asia. By utilizing biological and historical information provided by the user, ancestry is assigned based on complex statistical analyses searching for distinctive patterns in the DNA that distinguish between the Australian and Japanese populations. Important features taken into consideration are the detection of a rare event, the effect of sample size and the impact of natural variation.
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Book chapters on the topic "Genetic admixture model"

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Sommer, Marianne. "17. Genetic Trees, Admixture, and Mosaics." In The Diagrammatics of ‘Race’. Open Book Publishers, 2024. http://dx.doi.org/10.11647/obp.0396.21.

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As Julian Huxley and others had done some fifty years earlier, the assumptions underlying the tree-building approach were also criticized, particularly by emphasizing the prevalence of convergent evolution in humans. And already the earliest builders of population-genetic trees like Luigi Luca Cavalli-Sforza attempted to model admixture. It was only around 2000, however, that new software made it possible to cluster individual DNA samples while visualizing the degree to which such samples and the populations that were constructed on their basis might be the result of admixtures. In these novel
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Barrandeguy, María Eugenia, and María Victoria García. "Indirect methods for monitoring and modeling gene flow in natural plant populations." In Gene flow: monitoring, modeling and mitigation. CABI, 2021. http://dx.doi.org/10.1079/9781789247480.0002.

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Abstract Gene flow is a micro-evolutionary process that maintains the allelic exchange among local populations, increasing population genetic diversity. Because of the immobility of plants, pollen plays a major role in connecting extant populations while seeds are necessary to establish and maintain populations of plants. Despite the widespread use of next-generation sequencing platforms, co-dominant molecular markers, such as microsatellites, are still useful and informative tools in molecular ecology and conservation genetic studies. These markers are currently the most frequently used tools
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Sommer, Marianne. "20. Deconstructing the Tree Diagram to a Mess – or at least a Net." In The Diagrammatics of ‘Race’. Open Book Publishers, 2024. http://dx.doi.org/10.11647/obp.0396.24.

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Despite the resilience of traditional models, the increasing knowledge about the amount of admixture in living populations and genetic transfer between archaic (such as Neanderthal and Denisovan) and modern human lines raised new questions. Are we entering a post-Linnean and post-Haeckelian age, in which heterarchical understandings of diversity and net-shaped notions of human relatedness take over? Is opinion more generally moving towards models such as proposed by Franz Weidenreich close to eighty years ago that today are subsumed in modified forms under the label of multiregionalism, in whi
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Abel, Sarah. "The Geneticist’s Dilemma." In Permanent Markers. University of North Carolina Press, 2022. http://dx.doi.org/10.5149/northcarolina/9781469665153.003.0003.

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This chapter considers how research scientists attempt to find “objective” and scientifically robust ways to convey personalized DNA ancestry reports to members of the public while guarding against “ideological” or divisive uses of these data. The narrative focuses on two case studies: first, a nationwide research project on the genetic dynamics of mestiçagem in Brazil, which offered personal admixture reports to participants; and second, the attempts of African American scientists to produce “ethnic-matching” tests for the descendants of enslaved Africans. The chapter points out that there i
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Reimold, Wolf Uwe, Toni Schulz, Stephan König, et al. "Genesis of the mafic granophyre of the Vredefort impact structure (South Africa): Implications of new geochemical and Se and Re-Os isotope data." In Large Meteorite Impacts and Planetary Evolution VI. Geological Society of America, 2021. http://dx.doi.org/10.1130/2021.2550(09).

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ABSTRACT This contribution is concerned with the debated origin of the impact melt rock in the central uplift of the world’s largest confirmed impact structure—Vredefort (South Africa). New major- and trace-element abundances, including those of selected highly siderophile elements (HSEs), Re-Os isotope data, as well as the first Se isotope and Se-Te elemental systematics are presented for the felsic and mafic varieties of Vredefort impact melt rock known as “Vredefort Granophyre.” In addition to the long-recognized “normal” (i.e., felsic, &amp;gt;66 wt% SiO2) granophyre variety, a more mafic
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Ureña, Irene, Silvia Guimarães, Simon J. M. Davis, et al. "An Archaeogenetics Study of Cattle Bones from Seventeenth Century Carnide, Lisbon, Portugal." In Cattle and People. Lockwood Press, 2022. http://dx.doi.org/10.5913/archbio04.08.

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Inheritable traits of cattle were modified in various ways at different times by diverse cultures. A large collection of seventeenth century cattle remains excavated from 71 silos in the Largo do Coreto in Carnide, Lisbon, included 47 com- plete and 44 distal ends of metacarpals. These provide an opportunity to make a detailed osteometric and archaeogenetics study. While morphological changes such as size increase, as detected in bone measurements, indicate improvement for larger animals, ancient DNA is useful for studying evolutionary trajectories and modes of improvement of domestic animals.
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Conference papers on the topic "Genetic admixture model"

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Lammel, Oliver, Michael Severin, Holger Ax, et al. "High Momentum Jet Flames at Elevated Pressure: A — Experimental and Numerical Investigation for Different Fuels." In ASME Turbo Expo 2017: Turbomachinery Technical Conference and Exposition. American Society of Mechanical Engineers, 2017. http://dx.doi.org/10.1115/gt2017-64615.

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In this work, results of comprehensive high-pressure tests and numerical simulations of high momentum jet flames in an optically accessible combustion chamber are presented. A generic single nozzle burner was designed as a full-scale representation of one duct of a high temperature FLOX® gas turbine combustor with a model pilot burner supporting the main nozzle. As an advanced step of the FLOX® gas turbine combustor development process, tests and simulations of the entire burner system (consisting of a multi nozzle main stage plus a pilot stage) are complemented with this work on an unscaled s
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