Variant Details

Variant: nsv821668

Internal ID

16064043

Landmark

Location Information

Type	Coordinates	Assembly	Other Links
Inner	chr11:55386454..56049352	hg38	UCSC Ensembl
Inner	chr11:55153930..55816828	hg19	UCSC Ensembl
Inner	chr11:54910506..55573404	hg18	UCSC Ensembl
Inner	chr11:54910506..55573404	hg17	UCSC Ensembl

Cytoband

11q11

Allele length

Assembly	Allele length
hg38	662899
hg19	662899
hg18	662899
hg17	662899

Variant Type

CNV loss

Copy Number

Allele State

Allele Origin

Probe Count

Validation Flag

Merged Status

Merged Variants

Supporting Variants

nssv1421242

Samples

Known Genes

OR10AG1, OR4C11, OR4C15, OR4C16, OR4C6, OR4P4, OR4S2, OR5AS1, OR5D13, OR5D14, OR5D16, OR5D18, OR5F1, OR5I1, OR5L1, OR5L2, OR5W2, OR7E5P, TRIM51

Method

ROMA

Analysis

Measured intensities without background subtraction were used to calculate ratios. Data were normalized using an intensity-based lowess curve fitting algorithm similar to that described in Yang et al. Log ratio values obtained from color reversal experiments were averaged and displayed as presented in the figures. Copy number polymorphisms (CNPs) were identified based on probe ratios using a Hidden Markov Model.

Platform

A custom Nimblegen photoprint 85,000 probe ROMA oligo array platform was used.

Comments

Reference

Sebat_et_al_2004

Pubmed ID

15273396

Accession Number(s)

nsv821668

Frequency

Sample Size	31
Observed Gain	0
Observed Loss	1
Observed Complex	0
Frequency	n/a