ArticleBioData mining2009
Database mining for selection of SNP markers useful in admixture mapping.
Article in BioData mining, 2009. 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.
- A Pipeline and Recommendations for Population and Individual Diagnostic SNP Selection in Non-Model Species.Molecular ecology resources · 2025Article
- Multidimensional Approach Assessing the Role of Interleukin 1 Beta in Mesial Temporal Lobe Epilepsy.Frontiers in neurology · 2021Article
- LEI: A Novel Allele Frequency-Based Feature Selection Method for Multi-ancestry Admixed Populations.Scientific reports · 2019Article
- Ancestry inference using principal component analysis and spatial analysis: a distance-based analysis to account for population substructure.BMC genomics · 2017Article
- A Prediction Algorithm for Drug Response in Patients with Mesial Temporal Lobe Epilepsy Based on Clinical and Genetic Information.PloS one · 2017Article
- A genome-wide study of lipid response to fenofibrate in Caucasians: a combined analysis of the GOLDN and ACCORD studies.Pharmacogenetics and genomics · 2016Article
- Tracking the origins of Yakutian horses and the genetic basis for their fast adaptation to subarctic environments.Proceedings of the National Academy of Sciences of the United States of America · 2015Article
- Systemic lupus erythematosus-associated neutrophil cytosolic factor 2 mutation affects the structure of NADPH oxidase complex.The Journal of biological chemistry · 2015Article
- Self-reported race/ethnicity in the age of genomic research: its potential impact on understanding health disparities.Human genomics · 2015Review
- Mapping asthma-associated variants in admixed populations.Frontiers in genetics · 2015Review
- GWAS identifies novel SLE susceptibility genes and explains the association of the HLA region.Genes and immunity · 2014Article
- Individualized risk for statin-induced myopathy: current knowledge, emerging challenges and potential solutions.Pharmacogenomics · 2012Review
- Comparison of measures of marker informativeness for ancestry and admixture mapping.BMC genomics · 2011Article
- Differences in candidate gene association between European ancestry and African American asthmatic children.PloS one · 2011Article
- Connecting the Human Variome Project to nutrigenomics.Genes & nutrition · 2010Article
- Mapping genes that predict treatment outcome in admixed populations.The pharmacogenomics journal · 2010Article
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
backgroundNew technologies make it possible for the first time to genotype hundreds of thousands of SNPs simultaneously. A wealth of genomic information in the form of publicly available databases is underutilized as a potential resource for uncovering functionally relevant markers underlying complex human traits. Given the huge amount of SNP data available from the annotation of human genetic variation, data mining is a reasonable approach to investigating the number of SNPs that are informative for ancestry information.
methodsThe distribution and density of SNPs across the genome of African and European populations were extensively investigated by using the HapMap, Affymetrix, and Illumina SNP databases. We exploited these resources by mining the data available from each of these databases to prioritize potential candidate SNPs useful for admixture mapping in complex human diseases and traits. Over 4 million SNPs were compared between Africans and Europeans on the basis of a pre-specified recommended allele frequency difference (delta) value of >or= 0.3.
resultsThe method identified 15% of HapMap, 11% of Affymetrix, and 14% of Illumina SNP sets as candidate SNPs, termed ancestry informative markers (AIMs). These AIM panels with assigned rs numbers, allele frequencies in each ethnic group, delta value, and map positions are all posted on our website http://www.ssg.uab.edu/downloads/admixture_mapping/SNPAIMs.txt. All marker information in this data set is freely and publicly available without restriction.
conclusionThe selected SNP sets represent valuable resources for admixture mapping studies. The overlap between selected AIMs by this single measure of marker informativeness in the different platforms is discussed.
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Registered trials
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.