Fully exploiting SNP arrays: a systematic review on the tools to extract underlying genomic structure

L Balagué-Dobón, A Cáceres… - Briefings in …, 2022 - academic.oup.com
Single nucleotide polymorphisms (SNPs) are the most abundant type of genomic variation
and the most accessible to genotype in large cohorts. However, they individually explain a …

Comparative linkage analysis and visualization of high-density oligonucleotide SNP array data

I Leykin, K Hao, J Cheng, N Meyer, MR Pollak… - BMC genetics, 2005 - Springer
Background The identification of disease-associated genes using single nucleotide
polymorphisms (SNPs) has been increasingly reported. In particular, the Affymetrix Mapping …

The SNPMaP package for R: a framework for genome-wide association using DNA pooling on microarrays

OSP Davis, R Plomin, LC Schalkwyk - Bioinformatics, 2009 - academic.oup.com
Large-scale genome-wide association (GWA) studies using thousands of high-density SNP
microarrays are becoming an essential tool in the search for loci related to heritable …

adegenet 1.3-1: new tools for the analysis of genome-wide SNP data

T Jombart, I Ahmed - Bioinformatics, 2011 - academic.oup.com
While the R software is becoming a standard for the analysis of genetic data, classical
population genetics tools are being challenged by the increasing availability of genomic …

The SNP Consortium website: past, present and future

GA Thorisson, LD Stein - Nucleic acids research, 2003 - academic.oup.com
The SNP Consortium website (http://snp. cshl. org) has undergone many changes since its
initial conception three years ago. The database back end has been changed from the …

FunctSNP: an R package to link SNPs to functional knowledge and dbAutoMaker: a suite of Perl scripts to build SNP databases

SJ Goodswen, C Gondro, NS Watson-Haigh… - BMC …, 2010 - Springer
Background Whole genome association studies using highly dense single nucleotide
polymorphisms (SNPs) are a set of methods to identify DNA markers associated with …

Identification and validation of copy number variants using SNP genotyping arrays from a large clinical cohort

A Valsesia, BJ Stevenson, D Waterworth, V Mooser… - BMC genomics, 2012 - Springer
Background Genotypes obtained with commercial SNP arrays have been extensively used
in many large case-control or population-based cohorts for SNP-based genome-wide …

A system for exact and approximate genetic linkage analysis of SNP data in large pedigrees

M Silberstein, O Weissbrod, L Otten, A Tzemach… - …, 2013 - academic.oup.com
Motivation: The use of dense single nucleotide polymorphism (SNP) data in genetic linkage
analysis of large pedigrees is impeded by significant technical, methodological and …

Dealing with heterogeneity between cohorts in genomewide SNP association studies

JJ Lebrec, T Stijnen… - Statistical applications in …, 2010 - degruyter.com
In Genomewide association (GWA) studies investigating thousands of SNPs, large sample
sizes are needed to obtain a reasonable power after correction for multiple testing. To obtain …

[PDF][PDF] Zanardi: an open-source pipeline for multiple-species genomic analysis of SNP array data

G Marras, A Rossoni, H Schwarzenbacher, S Biffani… - Anim Genet, 2017 - researchgate.net
Description: Exploration of SNP array-based genomic data typically requires using specific
software. However, the wide availability of analysis software brings extra challenges …