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- W2950235002 abstract "<ns4:p>As part of a study into the molecular genetics of sexually dimorphic complex traits, we used high-throughput sequencing to obtain data on genomic variation in an outbred laboratory-adapted fruit fly (<ns4:italic>Drosophila melanogaster</ns4:italic>) population. We successfully resequenced the whole genome of 220 hemiclonal females that were heterozygous for the same Berkeley reference line genome (BDGP6/dm6), and a unique haplotype from the outbred base population (LH<ns4:sub>M</ns4:sub>). The use of a static and known genetic background enabled us to obtain sequences from whole-genome phased haplotypes. We used a BWA-Picard-GATK pipeline for mapping sequence reads to the dm6 reference genome assembly, at a median depth-of coverage of 31X, and have made the resulting data publicly-available in the NCBI Short Read Archive (Accession number SRP058502). We used Haplotype Caller to discover and genotype 1,726,931 small genomic variants (SNPs and indels, <200bp). Additionally we detected and genotyped 167 large structural variants (1-100Kb in size) using GenomeStrip/2.0. Sequence and genotype data are publicly-available at the corresponding NCBI databases: Short Read Archive, dbSNP and dbVar (BioProject PRJNA282591). We have also released the unfiltered genotype data, and the code and logs for data processing and summary statistics (<ns4:ext-link xmlns:ns3=http://www.w3.org/1999/xlink ext-link-type=uri ns3:href=https://zenodo.org/communities/sussex_drosophila_sequencing/>https://zenodo.org/communities/sussex_drosophila_sequencing/</ns4:ext-link>).</ns4:p>" @default.
- W2950235002 created "2019-06-27" @default.
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- W2950235002 date "2016-12-22" @default.
- W2950235002 modified "2023-09-25" @default.
- W2950235002 title "Whole genome resequencing of a laboratory-adapted Drosophila melanogaster population sample" @default.
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- W2950235002 doi "https://doi.org/10.12688/f1000research.9912.3" @default.
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