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nstd172 (Deng et al. 2019)

Organism:
Human
Study Type:
Control Set
Submitter:
Hoh Boon-Peng
Description:
Structure variant of five native trios from Peninsular Malaysia and North Borneo. See Variant Summary counts for nstd172 in dbVar Variant Summary.
Publication(s):
Deng et al. 2019
dbGaP Release Date:
2014-06-01

Detailed Information: Download 4659 Variant Regions, Download 9152 Variant Calls, Download Both, FTP

Variant Summary

Assembly used for analysis:
Remapped: GRCh38.p12 (hg38)
Submitted: GRCh37.p13 (hg19)

Sequence IDChrNumber of Variant RegionsNumber of Variant CallsPlacement typeLink to graphical display
NC_000001.11Chr1306717RemappedNC_000001.11
NC_000002.12Chr2330596RemappedNC_000002.12
NC_000003.12Chr3275612RemappedNC_000003.12
NC_000004.12Chr4316675RemappedNC_000004.12
NC_000005.10Chr5269529RemappedNC_000005.10
NC_000006.12Chr6340643RemappedNC_000006.12
NC_000007.14Chr7290563RemappedNC_000007.14
NC_000008.11Chr8223431RemappedNC_000008.11
NC_000009.12Chr9205422RemappedNC_000009.12
NC_000010.11Chr10270552RemappedNC_000010.11
NC_000011.10Chr11208526RemappedNC_000011.10
NC_000012.12Chr12244450RemappedNC_000012.12
NC_000013.11Chr13185334RemappedNC_000013.11
NC_000014.9Chr14121247RemappedNC_000014.9
NC_000015.10Chr15118241RemappedNC_000015.10
NC_000016.10Chr16144225RemappedNC_000016.10
NC_000017.11Chr17209362RemappedNC_000017.11
NC_000018.10Chr18114236RemappedNC_000018.10
NC_000019.10Chr19139226RemappedNC_000019.10
NC_000020.11Chr20114178RemappedNC_000020.11
NC_000021.9Chr2175141RemappedNC_000021.9
NC_000022.11Chr22114167RemappedNC_000022.11
NT_187515.1Chr1|NT_187515.111RemappedNT_187515.1
NT_187518.1Chr1|NT_187518.1313RemappedNT_187518.1
NT_187521.1Chr1|NT_187521.1215RemappedNT_187521.1
NT_187646.1Chr1|NT_187646.1313RemappedNT_187646.1
NW_003315907.2Chr1|NW_003315907.211RemappedNW_003315907.2
NW_011332687.1Chr1|NW_011332687.1110RemappedNW_011332687.1
NW_011332688.1Chr1|NW_011332688.111RemappedNW_011332688.1
NW_014040926.1Chr1|NW_014040926.111RemappedNW_014040926.1
NW_017852928.1Chr1|NW_017852928.146RemappedNW_017852928.1
NW_018654707.1Chr1|NW_018654707.1214RemappedNW_018654707.1
NT_187523.1Chr2|NT_187523.144RemappedNT_187523.1
NT_187525.1Chr2|NT_187525.144RemappedNT_187525.1
NT_187527.1Chr2|NT_187527.111RemappedNT_187527.1
NT_187529.1Chr2|NT_187529.11414RemappedNT_187529.1
NT_187530.1Chr2|NT_187530.122RemappedNT_187530.1
NT_187647.1Chr2|NT_187647.144RemappedNT_187647.1
NT_187678.1Chr3|NT_187678.111RemappedNT_187678.1
NT_187688.1Chr3|NT_187688.111RemappedNT_187688.1
NT_187689.1Chr3|NT_187689.111RemappedNT_187689.1
NT_187690.1Chr3|NT_187690.111RemappedNT_187690.1
NT_187691.1Chr3|NT_187691.111RemappedNT_187691.1
NT_187532.1Chr3|NT_187532.111RemappedNT_187532.1
NT_187534.1Chr3|NT_187534.111RemappedNT_187534.1
NT_187537.1Chr3|NT_187537.112RemappedNT_187537.1
NT_187649.1Chr3|NT_187649.111RemappedNT_187649.1
NW_009646198.1Chr3|NW_009646198.1415RemappedNW_009646198.1
NW_011332691.1Chr3|NW_011332691.111RemappedNW_011332691.1
NW_019805489.1Chr3|NW_019805489.111RemappedNW_019805489.1
NT_187679.1Chr4|NT_187679.11119RemappedNT_187679.1
NT_187543.1Chr4|NT_187543.166RemappedNT_187543.1
NT_187544.1Chr4|NT_187544.116RemappedNT_187544.1
NT_187545.1Chr4|NT_187545.158RemappedNT_187545.1
NT_187650.1Chr4|NT_187650.166RemappedNT_187650.1
NW_003315915.1Chr4|NW_003315915.155RemappedNW_003315915.1
NT_187549.1Chr5|NT_187549.111RemappedNT_187549.1
NT_187550.1Chr5|NT_187550.111RemappedNT_187550.1
NT_187651.1Chr5|NT_187651.111RemappedNT_187651.1
NW_003315917.2Chr5|NW_003315917.222RemappedNW_003315917.2
NW_016107298.1Chr5|NW_016107298.144RemappedNW_016107298.1
NT_187552.1Chr6|NT_187552.11517RemappedNT_187552.1
NT_187553.1Chr6|NT_187553.177RemappedNT_187553.1
NT_187558.1Chr7|NT_187558.117RemappedNT_187558.1
NT_187560.1Chr7|NT_187560.155RemappedNT_187560.1
NT_187562.1Chr7|NT_187562.11719RemappedNT_187562.1
NT_187563.1Chr7|NT_187563.133RemappedNT_187563.1
NT_187653.1Chr7|NT_187653.117RemappedNT_187653.1
NT_187680.1Chr8|NT_187680.166RemappedNT_187680.1
NT_187565.1Chr8|NT_187565.11618RemappedNT_187565.1
NT_187568.1Chr8|NT_187568.122RemappedNT_187568.1
NT_187571.1Chr8|NT_187571.1311RemappedNT_187571.1
NT_187573.1Chr8|NT_187573.111RemappedNT_187573.1
NT_187574.1Chr8|NT_187574.144RemappedNT_187574.1
NT_187576.1Chr8|NT_187576.12539RemappedNT_187576.1
NT_187655.1Chr8|NT_187655.188RemappedNT_187655.1
NW_018654717.1Chr8|NW_018654717.11833RemappedNW_018654717.1
NW_003315930.1Chr9|NW_003315930.1516RemappedNW_003315930.1
NW_009646201.1Chr9|NW_009646201.144RemappedNW_009646201.1
NW_013171806.1Chr10|NW_013171806.1312RemappedNW_013171806.1
NT_187681.1Chr11|NT_187681.1833RemappedNT_187681.1
NT_187656.1Chr11|NT_187656.1833RemappedNT_187656.1
NT_187657.1Chr11|NT_187657.111RemappedNT_187657.1
NT_187581.1Chr11|NT_187581.1310RemappedNT_187581.1
NT_187584.1Chr11|NT_187584.133RemappedNT_187584.1
NT_187585.1Chr11|NT_187585.122RemappedNT_187585.1
NT_187586.1Chr11|NT_187586.1614RemappedNT_187586.1
NW_015148966.1Chr11|NW_015148966.1430RemappedNW_015148966.1
NT_187658.1Chr12|NT_187658.117RemappedNT_187658.1
NT_187591.1Chr12|NT_187591.111RemappedNT_187591.1
NW_003315941.1Chr12|NW_003315941.113RemappedNW_003315941.1
NW_003571050.1Chr12|NW_003571050.117RemappedNW_003571050.1
NW_011332696.1Chr12|NW_011332696.111RemappedNW_011332696.1
NW_018654718.1Chr12|NW_018654718.11021RemappedNW_018654718.1
NT_187592.1Chr13|NT_187592.144RemappedNT_187592.1
NW_011332698.1Chr13|NW_011332698.1712RemappedNW_011332698.1
NW_013171811.1Chr13|NW_013171811.1211RemappedNW_013171811.1
NT_187600.1Chr14|NT_187600.1716RemappedNT_187600.1
NT_187660.1Chr15|NT_187660.133RemappedNT_187660.1
NT_187605.1Chr15|NT_187605.124RemappedNT_187605.1
NW_003315944.2Chr15|NW_003315944.211RemappedNW_003315944.2
NW_011332701.1Chr15|NW_011332701.133RemappedNW_011332701.1
NT_187607.1Chr16|NT_187607.134RemappedNT_187607.1
NT_187610.1Chr16|NT_187610.111RemappedNT_187610.1
NW_019805500.1Chr16|NW_019805500.155RemappedNW_019805500.1
NT_187661.1Chr17|NT_187661.122RemappedNT_187661.1
NT_187662.1Chr17|NT_187662.11217RemappedNT_187662.1
NT_187664.1Chr17|NT_187664.133RemappedNT_187664.1
NW_003871093.1Chr17|NW_003871093.111RemappedNW_003871093.1
NT_187612.1Chr17|NT_187612.156RemappedNT_187612.1
NT_187613.1Chr17|NT_187613.144RemappedNT_187613.1
NT_187614.1Chr17|NT_187614.166RemappedNT_187614.1
NW_003315952.3Chr17|NW_003315952.31521RemappedNW_003315952.3
NW_016107299.1Chr17|NW_016107299.111RemappedNW_016107299.1
NW_017363817.1Chr17|NW_017363817.11013RemappedNW_017363817.1
NT_187665.1Chr18|NT_187665.188RemappedNT_187665.1
NT_187617.1Chr18|NT_187617.133RemappedNT_187617.1
NW_003315958.1Chr18|NW_003315958.111RemappedNW_003315958.1
NW_003315959.1Chr18|NW_003315959.111RemappedNW_003315959.1
NT_187693.1Chr19|NT_187693.11320RemappedNT_187693.1
NW_003571061.2Chr19|NW_003571061.21017RemappedNW_003571061.2
NW_003571057.2Chr19|NW_003571057.2710RemappedNW_003571057.2
NW_003571058.2Chr19|NW_003571058.2710RemappedNW_003571058.2
NW_003571059.2Chr19|NW_003571059.2710RemappedNW_003571059.2
NW_003571060.1Chr19|NW_003571060.1912RemappedNW_003571060.1
NW_003571056.2Chr19|NW_003571056.2710RemappedNW_003571056.2
NW_003571055.2Chr19|NW_003571055.2916RemappedNW_003571055.2
NT_187619.1Chr19|NT_187619.1213RemappedNT_187619.1
NT_187622.1Chr19|NT_187622.111RemappedNT_187622.1
NW_003315962.1Chr19|NW_003315962.1714RemappedNW_003315962.1
NW_003571054.1Chr19|NW_003571054.11219RemappedNW_003571054.1
NW_014040929.1Chr19|NW_014040929.122RemappedNW_014040929.1
NT_187624.1Chr20|NT_187624.122RemappedNT_187624.1
NT_187626.1Chr21|NT_187626.122RemappedNT_187626.1
NT_187627.1Chr21|NT_187627.112RemappedNT_187627.1
NW_003315968.2Chr21|NW_003315968.2312RemappedNW_003315968.2
NT_187629.1Chr22|NT_187629.111RemappedNT_187629.1
NT_187632.1Chr22|NT_187632.149RemappedNT_187632.1
NT_187633.1Chr22|NT_187633.111RemappedNT_187633.1
NW_003315972.2Chr22|NW_003315972.216RemappedNW_003315972.2
Sequence IDChrNumber of Variant RegionsNumber of Variant CallsPlacement typeLink to graphical display
NC_000001.10Chr1306717SubmittedNC_000001.10
NC_000002.11Chr2338604SubmittedNC_000002.11
NC_000003.11Chr3271597SubmittedNC_000003.11
NC_000004.11Chr4316675SubmittedNC_000004.11
NC_000005.9Chr5269529SubmittedNC_000005.9
NC_000006.11Chr6344658SubmittedNC_000006.11
NC_000007.13Chr7306581SubmittedNC_000007.13
NC_000008.10Chr8234459SubmittedNC_000008.10
NC_000009.11Chr9205422SubmittedNC_000009.11
NC_000010.10Chr10270552SubmittedNC_000010.10
NC_000011.9Chr11209527SubmittedNC_000011.9
NC_000012.11Chr12244450SubmittedNC_000012.11
NC_000013.10Chr13185334SubmittedNC_000013.10
NC_000014.8Chr14124256SubmittedNC_000014.8
NC_000015.9Chr15118241SubmittedNC_000015.9
NC_000016.9Chr16144225SubmittedNC_000016.9
NC_000017.10Chr17212365SubmittedNC_000017.10
NC_000018.9Chr18114236SubmittedNC_000018.9
NC_000019.9Chr19144235SubmittedNC_000019.9
NC_000020.10Chr20114178SubmittedNC_000020.10
NC_000021.8Chr2175141SubmittedNC_000021.8
NC_000022.10Chr22117170SubmittedNC_000022.10

Variant Region remap statusVariant Call remap status
Sequence IDChrVariant Regions on sourcePerfectGoodPassFailMultVariant Calls on sourcePerfectGoodPassFailMult
NC_000001.10Chr130628370016717637180062
NC_000002.11Chr23383060172460457201724
NC_000003.11Chr327126600055975910006
NC_000004.11Chr431629220022675622150038
NC_000005.9Chr526926100085295210008
NC_000006.11Chr63443180002665861900039
NC_000007.13Chr73062731490105815201530016
NC_000008.10Chr823416000173459351007101
NC_000009.11Chr92051920001342239300029
NC_000010.10Chr102702595303552522153012
NC_000011.9Chr112091850012352744900177
NC_000012.11Chr122442300001445041700033
NC_000013.10Chr131851720001333430700027
NC_000014.8Chr1412410194372562061114916
NC_000015.9Chr1511811200062412330008
NC_000016.9Chr16144135000922521500010
NC_000017.10Chr1721217012039365300214049
NC_000018.9Chr181141011001223622310012
NC_000019.9Chr191441171022423518310249
NC_000020.10Chr2011411200021781760002
NC_000021.8Chr217569000614112500016
NC_000022.10Chr2211711300221701610027

Samplesets

Number of Samplesets: 5

Sampleset ID:
1
Name:
BTQ
Sampleset Type:
Control
Description:
BTQ trio
Size:
3
Organisms:
Homo sapiens
Sampleset Phenotype(s):
None reported
  • Download Samples as CSV file
  • Samples for sampleset 1
    Sample IDSubject ID EthnicitySubject Phenotype
    BTQ038BTQ038BTQNot reported
    BTQ055BTQ055BTQNot reported
    BTQ016BTQ016BTQNot reported
    Sampleset ID:
    2
    Name:
    MDQ
    Sampleset Type:
    Control
    Description:
    MDQ trio
    Size:
    3
    Organisms:
    Homo sapiens
    Sampleset Phenotype(s):
    None reported
  • Download Samples as CSV file
  • Samples for sampleset 2
    Sample IDSubject ID EthnicitySubject Phenotype
    MDQ045MDQ045MDQNot reported
    MDQ025MDQ025MDQNot reported
    MDQ010MDQ010MDQNot reported
    Sampleset ID:
    3
    Name:
    SMI
    Sampleset Type:
    Control
    Description:
    SMI trio
    Size:
    3
    Organisms:
    Homo sapiens
    Sampleset Phenotype(s):
    None reported
  • Download Samples as CSV file
  • Samples for sampleset 3
    Sample IDSubject ID EthnicitySubject Phenotype
    SMI018SMI018SMINot reported
    SMI034SMI034SMINot reported
    SMI041SMI041SMINot reported
    Sampleset ID:
    4
    Name:
    NB_7-9
    Sampleset Type:
    Control
    Description:
    NB trio 1
    Size:
    3
    Organisms:
    Homo sapiens
    Sampleset Phenotype(s):
    None reported
  • Download Samples as CSV file
  • Samples for sampleset 4
    Sample IDSubject ID EthnicitySubject Phenotype
    NB07NB07NBNot reported
    NB09NB09NBNot reported
    NB08NB08NBNot reported
    Sampleset ID:
    5
    Name:
    NB_10-12
    Sampleset Type:
    Control
    Description:
    NB trio 2
    Size:
    3
    Organisms:
    Homo sapiens
    Sampleset Phenotype(s):
    None reported
  • Download Samples as CSV file
  • Samples for sampleset 5
    Sample IDSubject ID EthnicitySubject Phenotype
    NB11NB11NBNot reported
    NB10NB10NBNot reported
    NB12NB12NBNot reported

    Experimental Details

    Experiment IDTypeMethodAnalysisNumber of Variant Calls
    1DiscoverySequencingSequence alignment9,152

    Validations

    No validation data were submitted for this study.

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