Variant Details

Variant: essv6990614

Internal ID

12624695

Landmark

Location Information

Type	Coordinates	Assembly	Other Links
Inner	chr2:61672382..62157212	hg38	UCSC Ensembl
Inner	chr2:61899517..62384347	hg19	UCSC Ensembl
Inner	chr2:61753021..62237851	hg18	UCSC Ensembl

Cytoband

2p15

Allele length

Assembly	Allele length
hg38	484831
hg19	484831
hg18	484831

Variant Type

CNV loss

Copy Number

Allele State

Allele Origin

Probe Count

Validation Flag

Merged Status

Merged Variants

esv34000

Supporting Variants

Samples

Known Genes

CCT4, COMMD1, FAM161A

Method

SNP array

Analysis

We further explored the discovery of segmental deletions in the Kosraean population data where IBD is more prevalent, and we observe a larger number of gaps.We used a binomial score to rank potential deletions in homozygous gaps based on the number of mismatching SNPs and the rate of mismatch in the flanking shared segments, measured across all shared segments with the suspected gap. To prioritize the segmental gaps that were most likely to be representative of a deletion, we developed a scoring function based on the number of mismatching SNPs and levels of homozygosity in the gap.

Platform

Not reported

Comments

Reference

Gusev_et_al_2009

Pubmed ID

18971310

Accession Number(s)

essv6990614

Frequency

Sample Size	270
Observed Gain	0
Observed Loss	1
Observed Complex	0
Frequency	n/a