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Alignment/coverage issue at ADAM3A #239

Open GoogleCodeExporter opened 8 years ago

GoogleCodeExporter commented 8 years ago 
This weird dropout of 150kb or so in a subset of TCGA tumors.  See pictures 
attached. This could be a true copy number change and not a bug, but it's worth 
checking.  It occurs in normal tissues as well as tumors.

Original issue reported on code.google.com by benb...@gmail.com on 26 Apr 2012 at 2:11

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GoogleCodeExporter commented 8 years ago 
I found another example, looks like some samples are the same and some are 
different!  Have to check that this is not an IGV or TDF bug (check in BAM).

Original comment by benb...@gmail.com on 26 Apr 2012 at 2:46

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GoogleCodeExporter commented 8 years ago 
have you compared these to SVs in the 1000 genomes project data?

Original comment by tim.tri...@gmail.com on 26 Apr 2012 at 6:59

GoogleCodeExporter commented 8 years ago 
Not yet.  There's also a lot of good tracks of tandem duplications and stuff in 
UCSC.  I already saw that maybe it's not conserved in Chimp, which often 
indicates a recent duplication.

Original comment by benb...@gmail.com on 26 Apr 2012 at 7:04