Variant Details

Variant: esv27639

Internal ID

11044872

Landmark

Location Information

Type	Coordinates	Assembly	Other Links
Inner	chrX:120871686..120988001	hg38	UCSC Ensembl
Inner	chrX:120005540..120121855	hg19	UCSC Ensembl
Inner	chrX:119889568..119949536	hg18	UCSC Ensembl

Cytoband

Xq24

Allele length

Assembly	Allele length
hg38	116316
hg19	116316
hg18	59969

Variant Type

CNV gain+loss

Copy Number

Allele State

Allele Origin

Probe Count

Validation Flag

Merged Status

Merged Variants

Supporting Variants

esv12452

Samples

NA18502, NA18508, NA12414, NA19190, NA12044, NA12828, NA18907, NA07045, NA11894, NA19099, NA06985, NA18858, NA12006

Known Genes

CT47A1, CT47A10, CT47A11, CT47A12, CT47A2, CT47A3, CT47A4, CT47A5, CT47A6, CT47A7, CT47A8, CT47A9, CT47B1

Method

Oligo aCGH

Analysis

Segment log2 ratios from each sample. This was done running the GADA algorithm (Pique-Regi et al., 2008) using the options "-M 10 -T 10 -a 2.5". Filter non-CNV segments using intensity thresholds. Merge remaining CNV "calls" within each sample. Adjacent calls of the same direction (gain or loss) are merged if both: the distance between calls is less than 10kb, and the distance between calls is less than 10% of the size of the largest of the two calls.

Platform

Sanger H. Sapiens 42mCGH Array 5781_53 726K v1

Comments

Reference

Conrad_et_al_2009

Pubmed ID

19812545

Accession Number(s)

esv27639

Frequency

Sample Size	40
Observed Gain	10
Observed Loss	3
Observed Complex	0
Frequency	n/a