Changes between Version 1 and Version 2 of BIOS_SampleBlacklist


Ignore:
Timestamp:
Sep 19, 2016 5:16:10 PM (8 years ago)
Author:
jamverlouw
Comment:

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  • BIOS_SampleBlacklist

    v1 v2  
    5858LLDeep_0063
    5959
    60 Corresponding RNA-seq sample is AC1C40ACXX-4-4 (old id: 103001429206) has only 76% of reads aligned. Flagged by MixupMapper? as sample mix-up. Also shows many discordant genotypes when using SNVMix.
     60Corresponding RNA-seq sample is AC1C40ACXX-4-4 (old id: 103001429206) has only 76% of reads aligned. Flagged by !MixupMapper? as sample mix-up. Also shows many discordant genotypes when using SNVMix.
    6161
    6262
    6363LLDeep_0350
    6464
    65 Corresponding RNA-seq sample is AD1GWFACXX-4-15 (old id: 103001383279), not flagged by MixupMapper?. However, shows many discordant genotypes when using SNVMix.
     65Corresponding RNA-seq sample is AD1GWFACXX-4-15 (old id: 103001383279), not flagged by !MixupMapper?. However, shows many discordant genotypes when using SNVMix.
    6666
    6767Has both high XIST and high chromosome Y expression levels. Average heteryzygosity for all samples = 49%, stdev = 1.9%. Sample LLDeep_0350, 103001383279 has heterozygosity rate of 72%: contaminated sample, where a male and female sample have likely been mixed in very similar proportions, hence the high expression levels of both XIST and chromosome Y genes.[[BR]]