AncestrySNPminer: a bioinformatics tool to retrieve and develop ancestry informative SNP panels.

Genomics
Sushil AmirisettyTesfaye M Baye

Abstract

A wealth of genomic information is available in public and private databases. However, this information is underutilized for uncovering population specific and 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 faster and cost effective approach for investigating the number of SNPs that are informative for ancestry. In this study, we present AncestrySNPminer, the first web-based bioinformatics tool specifically designed to retrieve Ancestry Informative Markers (AIMs) from genomic data sets and link these informative markers to genes and ontological annotation classes. The tool includes an automated and simple "scripting at the click of a button" functionality that enables researchers to perform various population genomics statistical analyses methods with user friendly querying and filtering of data sets across various populations through a single web interface. AncestrySNPminer can be freely accessed at https://research.cchmc.org/mershalab/AncestrySNPminer/login.php.

References

Feb 15, 2002·American Journal of Human Genetics·Heather E Collins-SchrammMichael F Seldin
Mar 1, 2003·Nature Genetics·L Luca Cavalli-Sforza, Marcus W Feldman
Jul 25, 2003·BioEssays : News and Reviews in Molecular, Cellular and Developmental Biology·A W F Edwards
Nov 25, 2003·American Journal of Human Genetics·Noah A RosenbergJonathan K Pritchard
Aug 11, 2004·Artificial Intelligence in Medicine·Shital C Shah, Andrew Kusiak
May 16, 2007·American Journal of Human Genetics·Alkes L PriceDavid Reich
May 16, 2007·American Journal of Human Genetics·Xianyun MaoEsteban J Parra
Jan 5, 2008·Proceedings of the National Academy of Sciences of the United States of America·Ramal MoonesingheJohn P A Ioannidis
Mar 31, 2010·Personalized Medicine·Tesfaye M BayeMichael Olivier
Oct 6, 2010·The Pharmacogenomics Journal·T M Baye, R A Wilke
Mar 1, 2012·BMC Proceedings·Tesfaye M BayeLisa J Martin

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Citations

Dec 10, 2015·International Journal of Legal Medicine·Xiangpei ZengBruce Budowle
Oct 21, 2015·Frontiers in Genetics·Tesfaye B Mersha
Feb 11, 2014·Forensic Science International. Genetics·Kenneth K KiddJudith R Kidd
Jun 13, 2015·International Journal of Genomics·T B MershaD W Fardo
Apr 5, 2020·BMC Bioinformatics·Siqi ChenTesfaye B Mersha

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