Variant Details

Variant: dgv1204e212

Internal ID

22784131

Landmark

Location Information

Type	Coordinates	Assembly	Other Links
	chr2:211099104..211105956	hg38	UCSC Ensembl
	chr2:211963828..211970680	hg19	UCSC Ensembl

Cytoband

2q34

Allele length

Assembly	Allele length
hg38	6853
hg19	6853

Variant Type

CNV loss

Copy Number

Allele State

Allele Origin

Probe Count

Validation Flag

Merged Status

Merged Variants

Supporting Variants

esv3584298, esv3584297

Samples

401636WR, 400570RW, 401162TM, 400987FB, 400534ME, 401005BL, 400268SY, 400789KV, 401146US, 400132HN, 400876OG, 400626FC, 400429YF, 400625FT, 400553PP, 400077EB, 401603HH, 400199SA, 401368WR, 400797ST, 400545EW, 400225CJ, 400245SJ, 400523GB, 400298ME, 400674CA, 400718PS, 400606HW, 401297KC, 400588BE, 401935TM, 400773GS, 400127MD, 401252AE, 400871CM, 400650RM, 400338SR, 400836LK, 401133JG, 401791FG, 401393JW, 401234MB, 400002HK, 400733SW, 400041LJ, 401448BJ, 401347DH, 401085LA, 400236DB, 400791GC, 401494PD, 401853WR, 401210PB, 400758KP, 400043HC, 400076LC, 401563TK, 401771OS, 401943KA, 400844GP, 401504RJ, 400014SL, 400571WV, 401696CG, 400671PP, 400458LS, 401295HB, 401958MF, 400235MP, 400410CD, 400586RD, 401215MJ, 400719TM, 401829FJ, 400106PC, 401912HD, 401105WS, 401354KM, 400130HA, 401607LL, 401154BR, 400833BB, 400213DB, 401053MF, 400209BS, 400238BB, 401993HM

Known Genes

Method

SNP array

Analysis

We used four separate algorithms to detect CNVs; Affymetrix Chromosome Analysis Suite (ChAS), iPattern, Nexus and Partek. Our primary analysis was performed based on ChAS CNV calls, which were then supported using the remaining three algorithms to construct a confidence set of CNVs. For all algorithms, we have used 8 probes and >1kb as a base line cutoff for CNV detection.

Platform

Affymetrix CytoScan HD 2.7M array

Comments

Reference

Uddin_et_al_2014

Pubmed ID

25503493

Accession Number(s)

dgv1204e212

Frequency

Sample Size	873
Observed Gain	0
Observed Loss	87
Observed Complex	0
Frequency	n/a