Variant Details

Variant: esv17187

Internal ID

11381106

Landmark

Location Information

Type	Coordinates	Assembly	Other Links
Inner	chr9:39826464..40197082	hg38	UCSC Ensembl
Inner	chr9:41971482..42342100	hg19	UCSC Ensembl
Inner	chr9:41961482..42332096	hg18	UCSC Ensembl

Cytoband

9p12

Allele length

Assembly	Allele length
hg38	370619
hg19	370619
hg18	370615

Variant Type

CNV gain

Copy Number

Allele State

Allele Origin

Probe Count

Validation Flag

Merged Status

Merged Variants

esv22064

Supporting Variants

essv55277, essv57296, essv60517, essv56361, essv49266, essv50083

Samples

NA11993, NA19099, NA18523, NA18517, NA07037, NA12776

Known Genes

KGFLP2, LOC643648

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)

esv17187

Frequency

Sample Size	40
Observed Gain	6
Observed Loss	0
Observed Complex	0
Frequency	n/a