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nstd91 (Sallustio et al. 2014)

Organism:
Human
Study Type:
Case-Control
Submitter:
Fabio Sallustio
Description:
We performed a whole-genome screening of CNVs in IgAN patients, their healthy relatives and healthy subjects (HS). A total of 217 individuals consisting of 51 IgAN cases and 166 healthy relatives were included in the initial screening. We identified 148 IgAN-specific aberrations, 105 loss and 43 gain. Several CNVs overlapped with regions evidenced by previous genome-wide genetic studies. Moreover, we found that IgAN patients characterized by deteriorated renal function carried low copy numbers of a CNV in chromosome 3. See Variant Summary counts for nstd91 in dbVar Variant Summary.
Publication(s):
Sallustio et al. 2014

Detailed Information: Download 148 Variant Regions, Download 148 Variant Calls, Download Both, FTP

Variant Summary

Assembly used for analysis:
Remapped: GRCh38.p12 (hg38)
Remapped: GRCh37.p13 (hg19)
Submitted: NCBI36 (hg18)

Sequence IDChrNumber of Variant RegionsNumber of Variant CallsPlacement typeLink to graphical display
NC_000001.11Chr144RemappedNC_000001.11
NC_000002.12Chr22828RemappedNC_000002.12
NC_000003.12Chr31313RemappedNC_000003.12
NC_000004.12Chr433RemappedNC_000004.12
NC_000005.10Chr588RemappedNC_000005.10
NC_000006.12Chr61515RemappedNC_000006.12
NC_000007.14Chr71818RemappedNC_000007.14
NC_000008.11Chr866RemappedNC_000008.11
NC_000009.12Chr966RemappedNC_000009.12
NC_000010.11Chr1033RemappedNC_000010.11
NC_000011.10Chr1166RemappedNC_000011.10
NC_000012.12Chr1233RemappedNC_000012.12
NC_000013.11Chr1311RemappedNC_000013.11
NC_000014.9Chr1444RemappedNC_000014.9
NC_000015.10Chr1533RemappedNC_000015.10
NC_000016.10Chr1666RemappedNC_000016.10
NC_000017.11Chr1788RemappedNC_000017.11
NC_000019.10Chr1966RemappedNC_000019.10
NC_000021.9Chr2133RemappedNC_000021.9
NC_000022.11Chr2244RemappedNC_000022.11
NT_187515.1Chr1|NT_187515.111RemappedNT_187515.1
NW_016107297.1Chr5|NW_016107297.111RemappedNW_016107297.1
NW_016107298.1Chr5|NW_016107298.111RemappedNW_016107298.1
NT_167246.2Chr6|NT_167246.211RemappedNT_167246.2
NT_167247.2Chr6|NT_167247.222RemappedNT_167247.2
NT_167245.2Chr6|NT_167245.211RemappedNT_167245.2
NT_187558.1Chr7|NT_187558.111RemappedNT_187558.1
NT_187653.1Chr7|NT_187653.111RemappedNT_187653.1
NW_019805493.1Chr7|NW_019805493.111RemappedNW_019805493.1
NT_187574.1Chr8|NT_187574.111RemappedNT_187574.1
NW_003315954.1Chr17|NW_003315954.111RemappedNW_003315954.1
Sequence IDChrNumber of Variant RegionsNumber of Variant CallsPlacement typeLink to graphical display
NC_000001.10Chr144RemappedNC_000001.10
NC_000002.11Chr22828RemappedNC_000002.11
NC_000003.11Chr31313RemappedNC_000003.11
NC_000004.11Chr433RemappedNC_000004.11
NC_000005.9Chr588RemappedNC_000005.9
NC_000006.11Chr61515RemappedNC_000006.11
NC_000007.13Chr71818RemappedNC_000007.13
NC_000008.10Chr866RemappedNC_000008.10
NC_000009.11Chr966RemappedNC_000009.11
NC_000010.10Chr1033RemappedNC_000010.10
NC_000011.9Chr1166RemappedNC_000011.9
NC_000012.11Chr1233RemappedNC_000012.11
NC_000013.10Chr1311RemappedNC_000013.10
NC_000014.8Chr1444RemappedNC_000014.8
NC_000015.9Chr1533RemappedNC_000015.9
NC_000016.9Chr1666RemappedNC_000016.9
NC_000017.10Chr1788RemappedNC_000017.10
NC_000019.9Chr1966RemappedNC_000019.9
NC_000021.8Chr2133RemappedNC_000021.8
NC_000022.10Chr2244RemappedNC_000022.10
NT_167245.1Chr6|NT_167245.111RemappedNT_167245.1
NT_167246.1Chr6|NT_167246.111RemappedNT_167246.1
NT_167247.1Chr6|NT_167247.122RemappedNT_167247.1
NW_003871064.1Chr7|NW_003871064.122RemappedNW_003871064.1
NW_003571046.1Chr11|NW_003571046.122RemappedNW_003571046.1
NW_003315954.1Chr17|NW_003315954.111RemappedNW_003315954.1
Sequence IDChrNumber of Variant RegionsNumber of Variant CallsPlacement typeLink to graphical display
NC_000001.9Chr144SubmittedNC_000001.9
NC_000002.10Chr22828SubmittedNC_000002.10
NC_000003.10Chr31313SubmittedNC_000003.10
NC_000004.10Chr433SubmittedNC_000004.10
NC_000005.8Chr588SubmittedNC_000005.8
NC_000006.10Chr61515SubmittedNC_000006.10
NC_000007.12Chr71818SubmittedNC_000007.12
NC_000008.9Chr866SubmittedNC_000008.9
NC_000009.10Chr966SubmittedNC_000009.10
NC_000010.9Chr1033SubmittedNC_000010.9
NC_000011.8Chr1166SubmittedNC_000011.8
NC_000012.10Chr1233SubmittedNC_000012.10
NC_000013.9Chr1311SubmittedNC_000013.9
NC_000014.7Chr1444SubmittedNC_000014.7
NC_000015.8Chr1533SubmittedNC_000015.8
NC_000016.8Chr1666SubmittedNC_000016.8
NC_000017.9Chr1788SubmittedNC_000017.9
NC_000019.8Chr1966SubmittedNC_000019.8
NC_000021.7Chr2133SubmittedNC_000021.7
NC_000022.9Chr2244SubmittedNC_000022.9

Variant Region remap statusVariant Call remap status
Sequence IDChrVariant Regions on sourcePerfectGoodPassFailMultVariant Calls on sourcePerfectGoodPassFailMult
NC_000001.9Chr1440000440000
NC_000002.10Chr22828000028280000
NC_000003.10Chr31313000013130000
NC_000004.10Chr4330000330000
NC_000005.8Chr5880000880000
NC_000006.10Chr61513000215130002
NC_000007.12Chr71815010218150102
NC_000008.9Chr8660000660000
NC_000009.10Chr9660000660000
NC_000010.9Chr10330000330000
NC_000011.8Chr11640002640002
NC_000012.10Chr12321000321000
NC_000013.9Chr13110000110000
NC_000014.7Chr14440000440000
NC_000015.8Chr15330000330000
NC_000016.8Chr16660000660000
NC_000017.9Chr17870001870001
NC_000019.8Chr19660000660000
NC_000021.7Chr21330000330000
NC_000022.9Chr22440000440000
Variant Region remap statusVariant Call remap status
Sequence IDChrVariant Regions on sourcePerfectGoodPassFailMultVariant Calls on sourcePerfectGoodPassFailMult
NC_000001.9Chr1430001430001
NC_000002.10Chr22824400028244000
NC_000003.10Chr31313000013130000
NC_000004.10Chr4330000330000
NC_000005.8Chr5860002860002
NC_000006.10Chr61513000215130002
NC_000007.12Chr71814110218141102
NC_000008.9Chr8650001650001
NC_000009.10Chr9660000660000
NC_000010.9Chr10330000330000
NC_000011.8Chr11641100641100
NC_000012.10Chr12321000321000
NC_000013.9Chr13110000110000
NC_000014.7Chr14440000440000
NC_000015.8Chr15330000330000
NC_000016.8Chr16660000660000
NC_000017.9Chr17870001870001
NC_000019.8Chr19660000660000
NC_000021.7Chr21330000330000
NC_000022.9Chr22440000440000

Samplesets

Number of Samplesets: 2

Sampleset ID:
1
Sampleset Type:
Case
Size:
51
Organisms:
Homo sapiens
Sampleset Phenotype(s):
Glomerulonephritis, IGA
  • Download Samples as CSV file
  • Samples for sampleset 1
    Sample IDCell TypeSubject ID EthnicitySubject Phenotype
    22whole blood22EuropeanGlomerulonephritis, IGA
    156whole blood156EuropeanGlomerulonephritis, IGA
    246whole blood246EuropeanGlomerulonephritis, IGA
    250whole blood250EuropeanGlomerulonephritis, IGA
    253whole blood253EuropeanGlomerulonephritis, IGA
    450whole blood450EuropeanGlomerulonephritis, IGA
    551whole blood551EuropeanGlomerulonephritis, IGA
    552whole blood552EuropeanGlomerulonephritis, IGA
    597whole blood597EuropeanGlomerulonephritis, IGA
    601whole blood601EuropeanGlomerulonephritis, IGA
    761whole blood761EuropeanGlomerulonephritis, IGA
    779whole blood779EuropeanGlomerulonephritis, IGA
    782whole blood782EuropeanGlomerulonephritis, IGA
    788whole blood788EuropeanGlomerulonephritis, IGA
    789whole blood789EuropeanGlomerulonephritis, IGA
    1215whole blood1215EuropeanGlomerulonephritis, IGA
    1449whole blood1449EuropeanGlomerulonephritis, IGA
    1651whole blood1651EuropeanGlomerulonephritis, IGA
    1652whole blood1652EuropeanGlomerulonephritis, IGA
    1664whole blood1664EuropeanGlomerulonephritis, IGA
    1683whole blood1683EuropeanGlomerulonephritis, IGA
    1725whole blood1725EuropeanGlomerulonephritis, IGA
    1728whole blood1728EuropeanGlomerulonephritis, IGA
    1741whole blood1741EuropeanGlomerulonephritis, IGA
    1785whole blood1785EuropeanGlomerulonephritis, IGA
    1859whole blood1859EuropeanGlomerulonephritis, IGA
    1914whole blood1914EuropeanGlomerulonephritis, IGA
    1915whole blood1915EuropeanGlomerulonephritis, IGA
    1992whole blood1992EuropeanGlomerulonephritis, IGA
    1994whole blood1994EuropeanGlomerulonephritis, IGA
    2006whole blood2006EuropeanGlomerulonephritis, IGA
    2007whole blood2007EuropeanGlomerulonephritis, IGA
    2009whole blood2009EuropeanGlomerulonephritis, IGA
    2024whole blood2024EuropeanGlomerulonephritis, IGA
    2025whole blood2025EuropeanGlomerulonephritis, IGA
    2038whole blood2038EuropeanGlomerulonephritis, IGA
    2172whole blood2172EuropeanGlomerulonephritis, IGA
    2173whole blood2173EuropeanGlomerulonephritis, IGA
    2208whole blood2208EuropeanGlomerulonephritis, IGA
    2209whole blood2209EuropeanGlomerulonephritis, IGA
    2213whole blood2213EuropeanGlomerulonephritis, IGA
    2220whole blood2220EuropeanGlomerulonephritis, IGA
    2318whole blood2318EuropeanGlomerulonephritis, IGA
    2339whole blood2339EuropeanGlomerulonephritis, IGA
    2373whole blood2373EuropeanGlomerulonephritis, IGA
    2429whole blood2429EuropeanGlomerulonephritis, IGA
    2431whole blood2431EuropeanGlomerulonephritis, IGA
    2517whole blood2517EuropeanGlomerulonephritis, IGA
    2520whole blood2520EuropeanGlomerulonephritis, IGA
    2535whole blood2535EuropeanGlomerulonephritis, IGA
    2541whole blood2541EuropeanGlomerulonephritis, IGA
    Sampleset ID:
    2
    Sampleset Type:
    Control
    Size:
    166
    Organisms:
    Homo sapiens
    Sampleset Phenotype(s):
    Health
  • Download Samples as CSV file
  • Samples for sampleset 2 (displaying 100 of the 166 samples)
    Sample IDCell TypeSubject ID EthnicitySubject Phenotype
    184whole blood184EuropeanHealth
    185whole blood185EuropeanHealth
    187whole blood187EuropeanHealth
    188whole blood188EuropeanHealth
    189whole blood189EuropeanHealth
    191whole blood191EuropeanHealth
    197whole blood197EuropeanHealth
    198whole blood198EuropeanHealth
    201whole blood201EuropeanHealth
    202whole blood202EuropeanHealth
    203whole blood203EuropeanHealth
    205whole blood205EuropeanHealth
    207whole blood207EuropeanHealth
    209whole blood209EuropeanHealth
    211whole blood211EuropeanHealth
    215whole blood215EuropeanHealth
    1202whole blood1202EuropeanHealth
    1216whole blood1216EuropeanHealth
    1380whole blood1380EuropeanHealth
    1450whole blood1450EuropeanHealth
    1451whole blood1451EuropeanHealth
    1452whole blood1452EuropeanHealth
    1453whole blood1453EuropeanHealth
    1454whole blood1454EuropeanHealth
    1455whole blood1455EuropeanHealth
    1457whole blood1457EuropeanHealth
    1458whole blood1458EuropeanHealth
    1459whole blood1459EuropeanHealth
    1460whole blood1460EuropeanHealth
    1461whole blood1461EuropeanHealth
    1462whole blood1462EuropeanHealth
    1463whole blood1463EuropeanHealth
    1464whole blood1464EuropeanHealth
    1465whole blood1465EuropeanHealth
    1466whole blood1466EuropeanHealth
    1653whole blood1653EuropeanHealth
    1654whole blood1654EuropeanHealth
    1682whole blood1682EuropeanHealth
    1720whole blood1720EuropeanHealth
    1721whole blood1721EuropeanHealth
    1722whole blood1722EuropeanHealth
    1723whole blood1723EuropeanHealth
    1724whole blood1724EuropeanHealth
    1726whole blood1726EuropeanHealth
    1727whole blood1727EuropeanHealth
    1729whole blood1729EuropeanHealth
    1730whole blood1730EuropeanHealth
    1731whole blood1731EuropeanHealth
    1813whole blood1813EuropeanHealth
    1826whole blood1826EuropeanHealth
    1827whole blood1827EuropeanHealth
    1828whole blood1828EuropeanHealth
    1829whole blood1829EuropeanHealth
    1854whole blood1854EuropeanHealth
    1855whole blood1855EuropeanHealth
    1856whole blood1856EuropeanHealth
    1857whole blood1857EuropeanHealth
    1858whole blood1858EuropeanHealth
    1860whole blood1860EuropeanHealth
    1876whole blood1876EuropeanHealth
    1895whole blood1895EuropeanHealth
    1896whole blood1896EuropeanHealth
    1897whole blood1897EuropeanHealth
    1916whole blood1916EuropeanHealth
    1917whole blood1917EuropeanHealth
    1918whole blood1918EuropeanHealth
    1927whole blood1927EuropeanHealth
    1928whole blood1928EuropeanHealth
    1934whole blood1934EuropeanHealth
    1955whole blood1955EuropeanHealth
    1965whole blood1965EuropeanHealth
    1966whole blood1966EuropeanHealth
    1993whole blood1993EuropeanHealth
    1995whole blood1995EuropeanHealth
    1996whole blood1996EuropeanHealth
    1997whole blood1997EuropeanHealth
    1998whole blood1998EuropeanHealth
    1999whole blood1999EuropeanHealth
    2000whole blood2000EuropeanHealth
    2001whole blood2001EuropeanHealth
    2008whole blood2008EuropeanHealth
    2010whole blood2010EuropeanHealth
    2011whole blood2011EuropeanHealth
    2012whole blood2012EuropeanHealth
    2013whole blood2013EuropeanHealth
    2014whole blood2014EuropeanHealth
    2015whole blood2015EuropeanHealth
    2029whole blood2029EuropeanHealth
    2030whole blood2030EuropeanHealth
    2031whole blood2031EuropeanHealth
    2032whole blood2032EuropeanHealth
    2033whole blood2033EuropeanHealth
    2034whole blood2034EuropeanHealth
    2035whole blood2035EuropeanHealth
    2036whole blood2036EuropeanHealth
    2039whole blood2039EuropeanHealth
    2073whole blood2073EuropeanHealth
    2144whole blood2144EuropeanHealth
    2150whole blood2150EuropeanHealth
    2151whole blood2151EuropeanHealth

    Experimental Details

    Experiment IDTypeMethodAnalysisPlatformsDataNumber of Variant Calls
    1DiscoverySNP arraySNP genotyping analysisGPL13829GEO148

    Validations

    No validation data were submitted for this study.

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