JLOH: extracting loss of heterozygosity blocks from short-read sequencing data
Visualitza/Obre
Estadístiques de LA Referencia / Recolecta
Inclou dades d'ús des de 2022
Cita com:
hdl:2117/384130
Tipus de documentText en actes de congrés
Data publicació2022-05
EditorBarcelona Supercomputing Center
Condicions d'accésAccés obert
Llevat que s'hi indiqui el contrari, els
continguts d'aquesta obra estan subjectes a la llicència de Creative Commons
:
Reconeixement-NoComercial-SenseObraDerivada 4.0 Internacional
Abstract
Loss of heterozygosity (LOH) happens when a heterozygous genome loses one of the two alleles at a locus. This may have an evolutionary advantage in highly unstable genomes such as those of hybrids (Smukowski Heil et al., 2017). By extracting LOH from a hybrid we understand which alleles were beneficial in its evolution. This is important in wild, clinical, and industrial settings (Gabaldón, 2020). The genomic properties of hybrids are still, however, poorly understood. LOH are studied with reliable short-read sequencing data (Mixão et al., 2019), but the downstream analysis is often done with custom scripts that reduce reproducibility and do not to leverage the power of a computing cluster. Here we present a program called “JLOH” that streamlines LOH extraction from sequencing data maximizing parallel computing.
CitacióSchiavinato, M.; Del Olmo, V.; Gabaldón, T. JLOH: extracting loss of heterozygosity blocks from short-read sequencing data. A: . Barcelona Supercomputing Center, 2022, p. 91.
Fitxers | Descripció | Mida | Format | Visualitza |
---|---|---|---|---|
9BSCDS_40_JLOH Extracting Loss.pdf | 704,4Kb | Visualitza/Obre |