Variant Details

Variant: esv17903

Internal ID

11035137

Landmark

Location Information

Type	Coordinates	Assembly	Other Links
Inner	chr1:16757055..16799134	hg38	UCSC Ensembl
Inner	chr1:17083550..17125629	hg19	UCSC Ensembl
Inner	chr1:16956137..16998216	hg18	UCSC Ensembl

Cytoband

1p36.13

Allele length

Assembly	Allele length
hg38	42080
hg19	42080
hg18	42080

Variant Type

CNV gain+loss

Copy Number

Allele State

Allele Origin

Probe Count

Validation Flag

Merged Status

Merged Variants

esv29642

Supporting Variants

essv65652, essv71650, essv42432, essv83559, essv55655, essv37977, essv42812, essv45611, essv81123, essv74600, essv69496

Samples

NA12004, NA19190, NA12044, NA19114, NA19099, NA19257, NA19225, NA18909, NA19240, NA18505, NA19129

Known Genes

MST1L

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)

esv17903

Frequency

Sample Size	40
Observed Gain	3
Observed Loss	8
Observed Complex	0
Frequency	n/a