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nstd92 (Forsberg et al. 2014)

Organism:
Human
Study Type:
Control Set
Submitter:
Chiara Rasi
Description:
We describe age-related accumulation of copy number variation (CNVs) on periferal blood cells of elderly men from 2 Swedish cohorts of normally-aging subjects, ULSAM and PIVUS. DNA was tested on Illumina genotyping arrays and LogR Ratio and B-allele-frequency data were used to identify somatic copy number events on automosomes and sex chromosomes. Loss of chromosome Y was found in at least 8.2% and 20.5% of subjects respectively. Median survival time and all-cause mortality, as well as cancer mortality, were found to be significatively associated with loss of chromosome Y in the studied subjects. See Variant Summary counts for nstd92 in dbVar Variant Summary.
Publication(s):
Forsberg et al. 2014

Detailed Information: Download 245 Variant Regions, Download 245 Variant Calls, Download Both, FTP

Variant Summary

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

Sequence IDChrNumber of Variant RegionsNumber of Variant CallsPlacement typeLink to graphical display
NC_000001.11Chr122RemappedNC_000001.11
NC_000002.12Chr233RemappedNC_000002.12
NC_000003.12Chr322RemappedNC_000003.12
NC_000004.12Chr422RemappedNC_000004.12
NC_000005.10Chr511RemappedNC_000005.10
NC_000006.12Chr611RemappedNC_000006.12
NC_000007.14Chr711RemappedNC_000007.14
NC_000008.11Chr811RemappedNC_000008.11
NC_000009.12Chr944RemappedNC_000009.12
NC_000011.10Chr1155RemappedNC_000011.10
NC_000012.12Chr1233RemappedNC_000012.12
NC_000013.11Chr1322RemappedNC_000013.11
NC_000014.9Chr1444RemappedNC_000014.9
NC_000015.10Chr1566RemappedNC_000015.10
NC_000016.10Chr1611RemappedNC_000016.10
NC_000017.11Chr1733RemappedNC_000017.11
NC_000019.10Chr1922RemappedNC_000019.10
NC_000020.11Chr2066RemappedNC_000020.11
NC_000022.11Chr2233RemappedNC_000022.11
NC_000024.10ChrY193193RemappedNC_000024.10
NT_187607.1Chr16|NT_187607.111RemappedNT_187607.1
Sequence IDChrNumber of Variant RegionsNumber of Variant CallsPlacement typeLink to graphical display
NC_000001.10Chr122SubmittedNC_000001.10
NC_000002.11Chr233SubmittedNC_000002.11
NC_000003.11Chr322SubmittedNC_000003.11
NC_000004.11Chr422SubmittedNC_000004.11
NC_000005.9Chr511SubmittedNC_000005.9
NC_000006.11Chr611SubmittedNC_000006.11
NC_000007.13Chr711SubmittedNC_000007.13
NC_000008.10Chr811SubmittedNC_000008.10
NC_000009.11Chr944SubmittedNC_000009.11
NC_000011.9Chr1155SubmittedNC_000011.9
NC_000012.11Chr1233SubmittedNC_000012.11
NC_000013.10Chr1322SubmittedNC_000013.10
NC_000014.8Chr1444SubmittedNC_000014.8
NC_000015.9Chr1566SubmittedNC_000015.9
NC_000016.9Chr1611SubmittedNC_000016.9
NC_000017.10Chr1733SubmittedNC_000017.10
NC_000019.9Chr1922SubmittedNC_000019.9
NC_000020.10Chr2066SubmittedNC_000020.10
NC_000022.10Chr2233SubmittedNC_000022.10
NC_000024.9ChrY193193SubmittedNC_000024.9

Variant Region remap statusVariant Call remap status
Sequence IDChrVariant Regions on sourcePerfectGoodPassFailMultVariant Calls on sourcePerfectGoodPassFailMult
NC_000001.10Chr1211000211000
NC_000002.11Chr2330000330000
NC_000003.11Chr3220000220000
NC_000004.11Chr4220000220000
NC_000005.9Chr5101000101000
NC_000006.11Chr6101000101000
NC_000007.13Chr7101000101000
NC_000008.10Chr8101000101000
NC_000009.11Chr9413000413000
NC_000011.9Chr11505000505000
NC_000012.11Chr12303000303000
NC_000013.10Chr13220000220000
NC_000014.8Chr14413000413000
NC_000015.9Chr15606000606000
NC_000016.9Chr16100001100001
NC_000017.10Chr17312000312000
NC_000019.9Chr19202000202000
NC_000020.10Chr20606000606000
NC_000022.10Chr22303000303000
NC_000024.9ChrY19301930001930193000

Samplesets

Number of Samplesets: 2

Sampleset ID:
1
Name:
ULSAM
Sampleset Type:
Control
Description:
Samples from the ULSAM Swedish cohort, Age > 70 years
Size:
128
Organisms:
Homo sapiens
Sampleset Phenotype(s):
Aging
Sex:
Male
  • Download Samples as CSV file
  • Samples for sampleset 1 (displaying 100 of the 128 samples)
    Sample IDCell TypeSubject ID SexSubject AgeSubject Phenotype
    ULSAM1197whole bloodULSAM1197Male72.70Aging
    ULSAM1124whole bloodULSAM1124Male81.10Aging
    ULSAM1494whole bloodULSAM1494Male73.70Aging
    ULSAM427whole bloodULSAM427Male76.70Aging
    ULSAM1054whole bloodULSAM1054Male81.20Aging
    ULSAM1665whole bloodULSAM1665Male71.30Aging
    ULSAM340whole bloodULSAM340Male82.70Aging
    ULSAM279whole bloodULSAM279Male82.90Aging
    ULSAM1439whole bloodULSAM1439Male72Aging
    ULSAM449whole bloodULSAM449Male74.90Aging
    ULSAM1496whole bloodULSAM1496Male71.90Aging
    ULSAM1287whole bloodULSAM1287Male72.40Aging
    ULSAM137whole bloodULSAM137Male75.90Aging
    ULSAM1302whole bloodULSAM1302Male72.40Aging
    ULSAM171whole bloodULSAM171Male75.80Aging
    ULSAM1412whole bloodULSAM1412Male80.60Aging
    ULSAM1050whole bloodULSAM1050Male73.10Aging
    ULSAM310whole bloodULSAM310Male77.10Aging
    ULSAM140whole bloodULSAM140Male77.80Aging
    ULSAM1360whole bloodULSAM1360Male72.20Aging
    ULSAM568whole bloodULSAM568Male82.20Aging
    ULSAM1435whole bloodULSAM1435Male80.60Aging
    ULSAM1113whole bloodULSAM1113Male81.10Aging
    ULSAM1581whole bloodULSAM1581Male71.60Aging
    ULSAM1447whole bloodULSAM1447Male72Aging
    ULSAM1078whole bloodULSAM1078Male73Aging
    ULSAM1159whole bloodULSAM1159Male74.70Aging
    ULSAM513whole bloodULSAM513Male74.70Aging
    ULSAM400whole bloodULSAM400Male82.50Aging
    ULSAM1340whole bloodULSAM1340Male72.30Aging
    ULSAM506whole bloodULSAM506Male82.30Aging
    ULSAM276whole bloodULSAM276Male77.20Aging
    ULSAM233whole bloodULSAM233Male77.30Aging
    ULSAM524whole bloodULSAM524Male82.20Aging
    ULSAM2106whole bloodULSAM2106Male81.20Aging
    ULSAM33whole bloodULSAM33Male77.80Aging
    ULSAM213whole bloodULSAM213Male71.50Aging
    ULSAM1242whole bloodULSAM1242Male72.60Aging
    ULSAM1182whole bloodULSAM1182Male80.90Aging
    ULSAM564whole bloodULSAM564Male74.60Aging
    ULSAM1222whole bloodULSAM1222Male81Aging
    ULSAM477whole bloodULSAM477Male74.80Aging
    ULSAM567whole bloodULSAM567Male74.60Aging
    ULSAM538whole bloodULSAM538Male76.50Aging
    ULSAM514whole bloodULSAM514Male82.30Aging
    ULSAM102whole bloodULSAM102Male78Aging
    ULSAM1377whole bloodULSAM1377Male72.20Aging
    ULSAM1361whole bloodULSAM1361Male80.70Aging
    ULSAM122whole bloodULSAM122Male77.60Aging
    ULSAM1188whole bloodULSAM1188Male81.20Aging
    ULSAM200whole bloodULSAM200Male71.50Aging
    ULSAM134whole bloodULSAM134Male77.90Aging
    ULSAM206whole bloodULSAM206Male71.50Aging
    ULSAM269whole bloodULSAM269Male71.50Aging
    ULSAM266whole bloodULSAM266Male71.50Aging
    ULSAM1002whole bloodULSAM1002Male81.30Aging
    ULSAM1158whole bloodULSAM1158Male72.80Aging
    ULSAM166whole bloodULSAM166Male77.60Aging
    ULSAM238whole bloodULSAM238Male77.40Aging
    ULSAM364whole bloodULSAM364Male77Aging
    ULSAM111whole bloodULSAM111Male77.60Aging
    ULSAM52whole bloodULSAM52Male77.80Aging
    ULSAM1267whole bloodULSAM1267Male72.50Aging
    ULSAM185whole bloodULSAM185Male71.40Aging
    ULSAM531whole bloodULSAM531Male74.70Aging
    ULSAM354whole bloodULSAM354Male77Aging
    ULSAM1169whole bloodULSAM1169Male81.30Aging
    ULSAM1157whole bloodULSAM1157Male72.80Aging
    ULSAM1572whole bloodULSAM1572Male80.30Aging
    ULSAM352whole bloodULSAM352Male82.60Aging
    ULSAM13whole bloodULSAM13Male77.90Aging
    ULSAM211whole bloodULSAM211Male78.10Aging
    ULSAM28whole bloodULSAM28Male76.20Aging
    ULSAM1522whole bloodULSAM1522Male71.80Aging
    ULSAM1502whole bloodULSAM1502Male71.80Aging
    ULSAM1366whole bloodULSAM1366Male72.20Aging
    ULSAM432whole bloodULSAM432Male76.80Aging
    ULSAM444whole bloodULSAM444Male71.40Aging
    ULSAM1356whole bloodULSAM1356Male72.20Aging
    ULSAM326whole bloodULSAM326Male77Aging
    ULSAM556whole bloodULSAM556Male78.30Aging
    ULSAM223whole bloodULSAM223Male71.50Aging
    ULSAM1238whole bloodULSAM1238Male72.60Aging
    ULSAM1367whole bloodULSAM1367Male80.70Aging
    ULSAM316whole bloodULSAM316Male77.10Aging
    ULSAM298whole bloodULSAM298Male82.80Aging
    ULSAM433whole bloodULSAM433Male75Aging
    ULSAM27whole bloodULSAM27Male77.90Aging
    ULSAM546whole bloodULSAM546Male76.50Aging
    ULSAM347whole bloodULSAM347Male75.20Aging
    ULSAM1350whole bloodULSAM1350Male72.20Aging
    ULSAM1338whole bloodULSAM1338Male72.30Aging
    ULSAM334whole bloodULSAM334Male77.90Aging
    ULSAM311whole bloodULSAM311Male75.40Aging
    ULSAM1331whole bloodULSAM1331Male72.30Aging
    ULSAM1051whole bloodULSAM1051Male73.10Aging
    ULSAM1201whole bloodULSAM1201Male72.70Aging
    ULSAM18whole bloodULSAM18Male83.20Aging
    ULSAM41whole bloodULSAM41Male83.20Aging
    ULSAM1317whole bloodULSAM1317Male72.40Aging
    Sampleset ID:
    2
    Name:
    PIVUS
    Sampleset Type:
    Control
    Description:
    Samples from the PIVUS Swedish cohort, Age > 70 years
    Size:
    110
    Organisms:
    Homo sapiens
    Sampleset Phenotype(s):
    Aging
    Sex:
    Male
  • Download Samples as CSV file
  • Samples for sampleset 2 (displaying 100 of the 110 samples)
    Sample IDCell TypeSubject ID SexSubject AgeSubject Phenotype
    PIVUS350whole bloodPIVUS350Male69Aging
    PIVUS621whole bloodPIVUS621Male70Aging
    PIVUS510whole bloodPIVUS510Male70Aging
    PIVUS372whole bloodPIVUS372Male70Aging
    PIVUS831whole bloodPIVUS831Male70Aging
    PIVUS575whole bloodPIVUS575Male70Aging
    PIVUS823whole bloodPIVUS823Male70Aging
    PIVUS548whole bloodPIVUS548Male70Aging
    PIVUS215whole bloodPIVUS215Male70Aging
    PIVUS371whole bloodPIVUS371Male70Aging
    PIVUS826whole bloodPIVUS826Male70Aging
    PIVUS361whole bloodPIVUS361Male70Aging
    PIVUS874whole bloodPIVUS874Male70Aging
    PIVUS263whole bloodPIVUS263Male70Aging
    PIVUS843whole bloodPIVUS843Male70Aging
    PIVUS373whole bloodPIVUS373Male70Aging
    PIVUS116whole bloodPIVUS116Male70Aging
    PIVUS641whole bloodPIVUS641Male70Aging
    PIVUS110whole bloodPIVUS110Male70Aging
    PIVUS397whole bloodPIVUS397Male70Aging
    PIVUS123whole bloodPIVUS123Male70Aging
    PIVUS574whole bloodPIVUS574Male70Aging
    PIVUS153whole bloodPIVUS153Male70Aging
    PIVUS150whole bloodPIVUS150Male70Aging
    PIVUS17whole bloodPIVUS17Male70Aging
    PIVUS569whole bloodPIVUS569Male70Aging
    PIVUS410whole bloodPIVUS410Male70Aging
    PIVUS820whole bloodPIVUS820Male70Aging
    PIVUS419whole bloodPIVUS419Male70Aging
    PIVUS281whole bloodPIVUS281Male69Aging
    PIVUS167whole bloodPIVUS167Male70Aging
    PIVUS657whole bloodPIVUS657Male70Aging
    PIVUS262whole bloodPIVUS262Male70Aging
    PIVUS61whole bloodPIVUS61Male70Aging
    PIVUS812whole bloodPIVUS812Male70Aging
    PIVUS536whole bloodPIVUS536Male70Aging
    PIVUS654whole bloodPIVUS654Male70Aging
    PIVUS218whole bloodPIVUS218Male70Aging
    PIVUS925whole bloodPIVUS925Male69Aging
    PIVUS168whole bloodPIVUS168Male70Aging
    PIVUS291whole bloodPIVUS291Male69Aging
    PIVUS73whole bloodPIVUS73Male70Aging
    PIVUS415whole bloodPIVUS415Male70Aging
    PIVUS560whole bloodPIVUS560Male70Aging
    PIVUS513whole bloodPIVUS513Male70Aging
    PIVUS512whole bloodPIVUS512Male70Aging
    PIVUS433whole bloodPIVUS433Male70Aging
    PIVUS377whole bloodPIVUS377Male70Aging
    PIVUS103whole bloodPIVUS103Male70Aging
    PIVUS430whole bloodPIVUS430Male70Aging
    PIVUS1014whole bloodPIVUS1014Male70Aging
    PIVUS313whole bloodPIVUS313Male70Aging
    PIVUS902whole bloodPIVUS902Male70Aging
    PIVUS779whole bloodPIVUS779Male70Aging
    PIVUS531whole bloodPIVUS531Male70Aging
    PIVUS30whole bloodPIVUS30Male70Aging
    PIVUS392whole bloodPIVUS392Male70Aging
    PIVUS369whole bloodPIVUS369Male70Aging
    PIVUS760whole bloodPIVUS760Male69Aging
    PIVUS857whole bloodPIVUS857Male70Aging
    PIVUS280whole bloodPIVUS280Male69Aging
    PIVUS237whole bloodPIVUS237Male70Aging
    PIVUS202whole bloodPIVUS202Male70Aging
    PIVUS108whole bloodPIVUS108Male70Aging
    PIVUS776whole bloodPIVUS776Male70Aging
    PIVUS571whole bloodPIVUS571Male70Aging
    PIVUS408whole bloodPIVUS408Male70Aging
    PIVUS109whole bloodPIVUS109Male70Aging
    PIVUS895whole bloodPIVUS895Male70Aging
    PIVUS635whole bloodPIVUS635Male70Aging
    PIVUS149whole bloodPIVUS149Male70Aging
    PIVUS161whole bloodPIVUS161Male70Aging
    PIVUS187whole bloodPIVUS187Male70Aging
    PIVUS156whole bloodPIVUS156Male70Aging
    PIVUS398whole bloodPIVUS398Male70Aging
    PIVUS791whole bloodPIVUS791Male70Aging
    PIVUS294whole bloodPIVUS294Male69Aging
    PIVUS332whole bloodPIVUS332Male69Aging
    PIVUS915whole bloodPIVUS915Male70Aging
    PIVUS869whole bloodPIVUS869Male70Aging
    PIVUS145whole bloodPIVUS145Male70Aging
    PIVUS522whole bloodPIVUS522Male70Aging
    PIVUS358whole bloodPIVUS358Male70Aging
    PIVUS1009whole bloodPIVUS1009Male69Aging
    PIVUS793whole bloodPIVUS793Male70Aging
    PIVUS255whole bloodPIVUS255Male70Aging
    PIVUS782whole bloodPIVUS782Male70Aging
    PIVUS537whole bloodPIVUS537Male70Aging
    PIVUS348whole bloodPIVUS348Male70Aging
    PIVUS810whole bloodPIVUS810Male70Aging
    PIVUS493whole bloodPIVUS493Male70Aging
    PIVUS466whole bloodPIVUS466Male70Aging
    PIVUS908whole bloodPIVUS908Male70Aging
    PIVUS21whole bloodPIVUS21Male70Aging
    PIVUS141whole bloodPIVUS141Male70Aging
    PIVUS1010whole bloodPIVUS1010Male70Aging
    PIVUS226whole bloodPIVUS226Male70Aging
    PIVUS704whole bloodPIVUS704Male70Aging
    PIVUS778whole bloodPIVUS778Male70Aging
    PIVUS585whole bloodPIVUS585Male70Aging

    Experimental Details

    Experiment IDTypeMethodAnalysisPlatformsNumber of Variant Calls
    1DiscoverySNP arraySNP genotyping analysisIllumina HumanOmni2.5-Quad BeadChip133
    2DiscoverySNP arraySNP genotyping analysisHumanOmniExpress BeadChip112

    Validations

    No validation data were submitted for this study.

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