Variant Details

Variant: esv11042

Internal ID

11374961

Landmark

Location Information

Type	Coordinates	Assembly	Other Links
Inner	chr3:198098831..198105932	hg38	UCSC Ensembl
Inner	chr3:197825702..197832803	hg19	UCSC Ensembl
Inner	chr3:199310099..199317200	hg18	UCSC Ensembl

Cytoband

3q29

Allele length

Assembly	Allele length
hg38	7102
hg19	7102
hg18	7102

Variant Type

CNV gain+loss

Copy Number

Allele State

Allele Origin

Probe Count

Validation Flag

Merged Status

Merged Variants

esv26652

Supporting Variants

essv57469, essv37432, essv34193, essv64287, essv76244, essv71257, essv79842, essv47814, essv73611, essv65900, essv43755, essv62180, essv77617, essv44678, essv33454, essv55872, essv52171, essv68517, essv59378, essv55690, essv48382, essv80946, essv60113, essv38683, essv46717, essv35539, essv83331, essv50486, essv81999, essv72461, essv62928, essv50678, essv74279

Samples

NA18502, NA11995, NA18861, NA12414, NA11931, NA12004, NA19190, NA18916, NA12156, NA11993, NA12489, NA18907, NA07045, NA19114, NA11894, NA12239, NA15510, NA19099, NA19257, NA19225, NA06985, NA18523, NA18858, NA18909, NA19108, NA19147, NA18517, NA19240, NA07037, NA12749, NA19129, NA12006, NA12776

Known Genes

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)

esv11042

Frequency

Sample Size	40
Observed Gain	22
Observed Loss	11
Observed Complex	0
Frequency	n/a