A curated catalogue of human genomic structural variation




Variant Details

Variant: dgv36n14



Internal ID20131425
Landmark
Location Information
TypeCoordinatesAssemblyOther Links
chr9:61835988..61954172hg38UCSC Ensembl
chr9:46095101..46211388hg19UCSC Ensembl
chr9:45985097..46101384hg18UCSC Ensembl
chr9:44647846..44764133hg17UCSC Ensembl
Cytoband9p11.2
Allele length
AssemblyAllele length
hg38118185
hg19116288
hg18116288
hg17116288
Variant TypeCNV gain
Copy Number
Allele State
Allele Origin
Probe Count
Validation Flag
Merged StatusM
Merged Variants
Supporting Variantsnsv433404, nsv433403
SamplesNA18507, NA19240
Known Genes
MethodSNP array
AnalysisLarge CNV discovery was accomplished by using HMMSeg, considering both the `LogR ratio' and `B-allele frequency' data for each sample simultaneously. We used a four-state model, one each for null (homozygous deletion), hemizygous deletion, diploid and amplification. Initial segmentation results were merged and filtered, requiring all variants to be larger than 1 kb in length and to span at least 10 probes for amplifications or hemizygous deletions, or 3 probes for homozygous deletions. We then used a combination of paired-end sequence maps, oligo array-CGH, and variant resequencing (described in Kidd et al. 2008) to support the calls.
PlatformIllumina Human1Mv1 DNA Analysis BeadChip (Human1Mv1_C)
Comments
ReferenceCooper_et_al_2008
Pubmed ID18776910
Accession Number(s)dgv36n14
Frequency
Sample Size9
Observed Gain2
Observed Loss0
Observed Complex0
Frequencyn/a


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