nstd3 (Lee et al. 2008)

Organism:
Rhesus macaque
Study Type:
Control Set
Submitter:
Charles Lee
Description:
Performed a study of CNVs in the macaque genome by using a macaque-specific array-based comparative genomic hybridization (aCGH) platform to describe patterns of copy number variation among the genomes of 10 macaque individuals
Publication(s):
Lee et al. 2008

Detailed Information: Download 123 Variant Regions, Download 214 Variant Calls, Download Both, FTP

Variant Summary

Assembly used for analysis:
Remapped: Mmul_8.0.1
Submitted: Mmul_051212

Sequence IDChrNumber of Variant RegionsNumber of Variant CallsPlacement typeLink to graphical display
NC_027893.1Chr149RemappedNC_027893.1
NC_027894.1Chr277RemappedNC_027894.1
NC_027895.1Chr388RemappedNC_027895.1
NC_027896.1Chr4920RemappedNC_027896.1
NC_027897.1Chr559RemappedNC_027897.1
NC_027898.1Chr6610RemappedNC_027898.1
NC_027899.1Chr7710RemappedNC_027899.1
NC_027900.1Chr8612RemappedNC_027900.1
NC_027901.1Chr9512RemappedNC_027901.1
NC_027902.1Chr1022RemappedNC_027902.1
NC_027903.1Chr1111RemappedNC_027903.1
NC_027904.1Chr1278RemappedNC_027904.1
NC_027905.1Chr13411RemappedNC_027905.1
NC_027906.1Chr1444RemappedNC_027906.1
NC_027907.1Chr1556RemappedNC_027907.1
NC_027908.1Chr1645RemappedNC_027908.1
NC_027909.1Chr1766RemappedNC_027909.1
NC_027910.1Chr1847RemappedNC_027910.1
NC_027911.1Chr19823RemappedNC_027911.1
NC_027912.1Chr20616RemappedNC_027912.1
NC_027913.1ChrX11RemappedNC_027913.1
NW_014998353.1Unplaced|NW_014998353.101RemappedNW_014998353.1
NW_015013305.1Unplaced|NW_015013305.111RemappedNW_015013305.1
Sequence IDChrNumber of Variant RegionsNumber of Variant CallsPlacement typeLink to graphical display
NC_007858.1Chr1611SubmittedNC_007858.1
NC_007859.1Chr255SubmittedNC_007859.1
NC_007860.1Chr399SubmittedNC_007860.1
NC_007861.1Chr41122SubmittedNC_007861.1
NC_007862.1Chr559SubmittedNC_007862.1
NC_007863.1Chr6610SubmittedNC_007863.1
NC_007864.1Chr7914SubmittedNC_007864.1
NC_007865.1Chr8612SubmittedNC_007865.1
NC_007866.1Chr9512SubmittedNC_007866.1
NC_007867.1Chr1047SubmittedNC_007867.1
NC_007868.1Chr1133SubmittedNC_007868.1
NC_007869.1Chr1255SubmittedNC_007869.1
NC_007870.1Chr13920SubmittedNC_007870.1
NC_007871.1Chr1457SubmittedNC_007871.1
NC_007872.1Chr1556SubmittedNC_007872.1
NC_007873.1Chr1645SubmittedNC_007873.1
NC_007874.1Chr1789SubmittedNC_007874.1
NC_007875.1Chr1847SubmittedNC_007875.1
NC_007876.1Chr19724SubmittedNC_007876.1
NC_007877.1Chr20717SubmittedNC_007877.1

Variant Region remap statusVariant Call remap status
Sequence IDChrVariant Regions on sourcePerfectGoodPassFailMultVariant Calls on sourcePerfectGoodPassFailMult
NC_007858.1Chr16041101109110
NC_007859.1Chr2503200503200
NC_007860.1Chr3907110907110
NC_007861.1Chr4110722022081220
NC_007862.1Chr5503110903510
NC_007863.1Chr66051001005500
NC_007864.1Chr79052201406440
NC_007865.1Chr86042001205700
NC_007866.1Chr95023001223700
NC_007867.1Chr10402020702140
NC_007868.1Chr11302100302100
NC_007869.1Chr12505000505000
NC_007870.1Chr139061202009650
NC_007871.1Chr14503110703130
NC_007872.1Chr15504100605100
NC_007873.1Chr16404000505000
NC_007874.1Chr17806110906120
NC_007875.1Chr18404000707000
NC_007876.1Chr1970160024014820
NC_007877.1Chr2071510017161000

Samplesets

Number of Samplesets: 1

Description:
9 unrelated rhesus macaques
Size:
9
Organisms:
Macaca mulatta
Sampleset Phenotype(s):
None reported
  • Download Samples as CSV file
  • Samples for sampleset 1
    Sample IDCell TypeSubject ID SexSubject Phenotype
    mmu_242_2005Whole bloodmmu_242_2005MaleNot reported
    mmu_321_1991Whole bloodmmu_321_1991FemaleNot reported
    mmu_135_1994Whole bloodmmu_135_1994FemaleNot reported
    mmu_228_1994Whole bloodmmu_228_1994MaleNot reported
    mmu_244_1996Whole bloodmmu_244_1996MaleNot reported
    mmu_182_1992Whole bloodmmu_182_1992FemaleNot reported
    mmu_256_1999Whole bloodmmu_256_1999FemaleNot reported
    mmu_211_1999Whole bloodmmu_211_1999MaleNot reported
    mmu_353_1991Whole bloodmmu_353_1991FemaleNot reported

    Experimental Details

    Experiment IDTypeMethodAnalysisPlatformsDataNumber of Variant Calls
    1DiscoveryOligo aCGHProbe signal intensityNimblegen Macaque Whole genome CGH 385K arrayGEO214

    Validations

    No validation data were submitted for this study.

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