KASPspoon: an in vitro and in silico PCR analysis tool for high-throughput SNP genotyping.

ABSTRACT:

Motivation

Fine mapping becomes a routine trial following quantitative trait loci (QTL) mapping studies to shrink the size of genomic segments underlying causal variants. The availability of whole genome sequences can facilitate the development of high marker density and predict gene content in genomic segments of interest. Correlations between genetic and physical positions of these loci require handling of different experimental genetic data types, and ultimately converting them into positioning markers using a routine and efficient tool.

Results

To convert classical QTL markers into KASP assay primers, KASPspoon simulates a PCR by running an approximate-match searching analysis on user-entered primer pairs against the provided sequences, and then comparing in vitro and in

SUBMITTER: Alsamman AM 

PROVIDER: S-EPMC6735863 | biostudies-literature | 2019 Sep

REPOSITORIES: biostudies-literature