FlyVar EMS Screen Track Settings
 
Variants Identified in FlyVar EMS Mutagenesis Screen   (All Variations tracks)

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Filters

Exclude variants with Quality/confidence score (QUAL) score less than
Exclude variants with these FILTER values:
 
PASS (All filters passed)
NonVar (No variant at this site)
NoData (No sequencing data at this site)
low_qual (indel posterior probability is less than 0.5)
low_VariantReads (Number of variant reads is less than 2)
low_VariantRatio (Variant read ratio is less than 0.06)
low_coverage (Total coverage is less than 5)
read_end_ratio (Ratio of variant reads within 5bp of read end is greater than 0.8)
Minimum minor allele frequency (if INFO column includes AF or AC+AN):

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Description

These tracks show the sequence (e.g., single nucleotide polymorphisms) and structural variants identified in 394 mutant strains from a EMS-mutagenesis screen and in their parental strain (FRT19A). The mutant strains carry lethal mutations on the X chromosome. The parental strain (FRT19A) was isogenized for only the X chromosome.

The datasets were obtained from the FlyVar web site. The variants were lifted from the D. melanogaster release 5 assembly to the release 6 assembly.

References

Haelterman NA, Jiang L, Li Y, Bayat V, Sandoval H, Ugur B, Tan KL, Zhang K, Bei D, Xiong B, Charng WL, Busby T, Jawaid A, David G, Jaiswal M, Venken KJ, Yamamoto S, Chen R, Bellen HJ. Large-scale identification of chemically induced mutations in Drosophila melanogaster. Genome Res. 2014 Oct;24(10):1707-18.

Wang F, Jiang L, Chen Y, Haelterman NA, Bellen HJ, Chen R. FlyVar: a database for genetic variation in Drosophila melanogaster. Database (Oxford). 2015 Aug 19;2015. pii: bav079.