Variant Details

Variant: nsv829820

Internal ID

16107003

Landmark

Location Information

Type	Coordinates	Assembly	Other Links
Outer	chr3:190379481..190544546	hg38	UCSC Ensembl
Outer	chr3:190097270..190262335	hg19	UCSC Ensembl
Outer	chr3:191579964..191745029	hg18	UCSC Ensembl
Outer	chr3:191579972..191745037	hg17	UCSC Ensembl

Cytoband

3q28

Allele length

Assembly	Allele length
hg38	165066
hg19	165066
hg18	165066
hg17	165066

Variant Type

CNV gain

Copy Number

Allele State

Allele Origin

Probe Count

Validation Flag

Merged Status

Merged Variants

Supporting Variants

nssv1443293

Samples

Known Genes

CLDN16, IL1RAP, TMEM207

Method

BAC aCGH

Analysis

Experimental SDs (SDautosome) were calculated for each experiment on the basis of the log2 ratios of the 24,392 reliable clones minus the clones removed because of low signal-to-noise ratio (SNR) or high SD of replicate clone measures (SDclone). Thresholds for determining CNV clones were set at a multiple of the SDautosome value. For each experiment, clones were annotated as uninformative if they were filtered via SNR or SDclone, as a CNV loss if the log2 ratio was less than the negative threshold, as unchanged if the log2 ratio was between the negative and positive thresholds, and as a CNV gain if the log2 ratio was above the positive threshold.

Platform

GPL2616

Comments

Reference

Wong_et_al_2007

Pubmed ID

17160897

Accession Number(s)

nsv829820

Frequency

Sample Size	95
Observed Gain	1
Observed Loss	0
Observed Complex	0
Frequency	n/a