Variant Details

Variant: nssv1445111

Internal ID

16095715

Landmark

Location Information

Type	Coordinates	Assembly	Other Links
Outer	chr5:149940811..150117140	hg38	UCSC Ensembl
Outer	chr5:149320374..149496703	hg19	UCSC Ensembl
Outer	chr5:149300567..149476896	hg18	UCSC Ensembl
Outer	chr5:149300567..149476896	hg17	UCSC Ensembl

Cytoband

5q32

Allele length

Assembly	Allele length
hg38	176330
hg19	176330
hg18	176330
hg17	176330

Variant Type

CNV loss

Copy Number

Allele State

Allele Origin

Probe Count

Validation Flag

Merged Status

Merged Variants

nsv830518

Supporting Variants

Samples

Known Genes

CSF1R, HMGXB3, PDE6A, PDGFRB, SLC26A2, TIGD6

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)

nssv1445111

Frequency

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