[HTML][HTML] AccuCalc: A python package for accuracy calculation in GWAS
The genome-wide association study (GWAS) is a popular genomic approach that identifies
genomic regions associated with a phenotype and, thus, aims to discover causative …
genomic regions associated with a phenotype and, thus, aims to discover causative …
Mining for single nucleotide polymorphisms and insertions/deletions in maize expressed sequence tag data
J Batley, G Barker, H O'Sullivan, KJ Edwards… - Plant …, 2003 - academic.oup.com
We have developed a computer based method to identify candidate single nucleotide
polymorphisms (SNPs) and small insertions/deletions from expressed sequence tag data …
polymorphisms (SNPs) and small insertions/deletions from expressed sequence tag data …
[PDF][PDF] Single nucleotide polymorphism identification in polyploids: a review, example, and recommendations
Understanding the relationship between genotype and phenotype is a major biological
question and being able to predict phenotypes based on molecular genotypes is integral to …
question and being able to predict phenotypes based on molecular genotypes is integral to …
[HTML][HTML] Genome-wide haplotype analysis improves trait predictions in Brassica napus hybrids
Combining ability is crucial for parent selection in crop hybrid breeding. Many studies have
attempted to provide reliable and quick methods to identify genome regions in parental lines …
attempted to provide reliable and quick methods to identify genome regions in parental lines …
[HTML][HTML] Watch out for a second SNP: focus on multi-nucleotide variants in coding regions and rescued stop-gained
F Degalez, F Jehl, K Muret, M Bernard, F Lecerf… - Frontiers in …, 2021 - frontiersin.org
Most single-nucleotide polymorphisms (SNPs) are located in non-coding regions, but the
fraction usually studied is harbored in protein-coding regions because potential impacts on …
fraction usually studied is harbored in protein-coding regions because potential impacts on …
Pitfalls of predicting complex traits from SNPs
The success of genome-wide association studies (GWASs) has led to increasing interest in
making predictions of complex trait phenotypes, including disease, from genotype data …
making predictions of complex trait phenotypes, including disease, from genotype data …
[HTML][HTML] Prediction strategies for leveraging information of associated traits under single-and multi-trait approaches in soybeans
The availability of molecular markers has revolutionized conventional ways to improve
genotypes in plant and animal breeding through genome-based predictions. Several …
genotypes in plant and animal breeding through genome-based predictions. Several …
Genomic prediction of preliminary yield trials in chickpea: Effect of functional annotation of SNPs and environment
Achieving yield potential in chickpea (Cicer arietinum L.) is limited by many constraints that
include biotic and abiotic stresses. Combining next‐generation sequencing technology with …
include biotic and abiotic stresses. Combining next‐generation sequencing technology with …
[HTML][HTML] Comparing genomic prediction models by means of cross validation
MF Schrauf, G de Los Campos, S Munilla - Frontiers in Plant Science, 2021 - frontiersin.org
In the two decades of continuous development of genomic selection, a great variety of
models have been proposed to make predictions from the information available in dense …
models have been proposed to make predictions from the information available in dense …
[HTML][HTML] TASSEL-GBS: a high capacity genotyping by sequencing analysis pipeline
JC Glaubitz, TM Casstevens, F Lu, J Harriman… - PloS one, 2014 - journals.plos.org
Genotyping by sequencing (GBS) is a next generation sequencing based method that takes
advantage of reduced representation to enable high throughput genotyping of large …
advantage of reduced representation to enable high throughput genotyping of large …