GWAS

(GWAS data used on the Zebrafish Mutation Project Web site comes from http://www.genome.gov/gwastudies/.)

Novel associations for hypothyroidism include known autoimmune risk loci.

The human homologues of the following genes have been identified in this study:

Gene name Reported Gene Ensembl ID Alleles found Associated phenotype Study Count
brap BRAP ENSDARG00000008560 4 Not determined 4
C12orf51 (3 of 3) C12orf51 ENSDARG00000090715 None Not determined 9
C12orf51 (1 of 3) C12orf51 ENSDARG00000079151 5 Not determined 9
foxe1 FOXE1 ENSDARG00000079266 2 Not determined 5
foxe3 FOXE1 ENSDARG00000062892 None Not determined 5
insra INSR ENSDARG00000011948 3 Normal 6
insrb INSR ENSDARG00000071524 3 Not determined 6
LOC100006770 C7orf62 ENSDARG00000053520 None Not determined 1
LOC100330423 C12orf51 ENSDARG00000003682 4 Not determined 9
LOC100330644 RSBN1 ENSDARG00000079999 3 Not determined 2
mhc2dab HLA-DRB1 ENSDARG00000079105 None Not determined 35
mhc2dab HLA-DRB5 ENSDARG00000079105 None Not determined 6
mhc2dab HLA-DQB1 ENSDARG00000079105 None Not determined 24
mtf1 MTF1 ENSDARG00000090180 1 Not determined 1
NP_001091732.1 HLA-DRB1 ENSDARG00000071168 1 Not determined 35
NP_001091732.1 HLA-DRB5 ENSDARG00000071168 1 Not determined 6
NP_001091732.1 HLA-DQB1 ENSDARG00000071168 1 Not determined 24
ptpn11a PTPN11 ENSDARG00000020334 2 Not determined 8
ptpn22 PTPN22 ENSDARG00000075062 5 Not determined 17
SACS (2 of 2) SACS ENSDARG00000062627 9 Not determined 3
SACS (1 of 2) SACS ENSDARG00000091042 None Not determined 3
SH2B3 (1 of 2) SH2B3 ENSDARG00000069958 None Not determined 19
si:busm1-104n07.3 HLA-DRB5 ENSDARG00000074510 1 Normal 6
si:busm1-104n07.3 HLA-DQB1 ENSDARG00000074510 1 Normal 24
si:busm1-104n07.3 HLA-DRB1 ENSDARG00000074510 1 Normal 35
si:busm1-160c18.1 HLA-DQA1 ENSDARG00000053739 2 Not determined 27
si:busm1-160c18.1 HLA-DQA2 ENSDARG00000053739 2 Not determined 17
si:busm1-160c18.3 HLA-DRB1 ENSDARG00000053738 None Not determined 35
si:busm1-160c18.3 HLA-DRB5 ENSDARG00000053738 None Not determined 6
si:busm1-160c18.3 HLA-DQB1 ENSDARG00000053738 None Not determined 24
si:busm1-160c18.3 HLA-DRB1 ENSDARG00000093706 None Not determined 35
si:busm1-160c18.3 HLA-DRB5 ENSDARG00000093706 None Not determined 6
si:busm1-160c18.3 HLA-DQB1 ENSDARG00000093706 None Not determined 24
si:busm1-194e12.11 HLA-DQA1 ENSDARG00000055441 1 Not determined 27
si:busm1-194e12.11 HLA-DQA2 ENSDARG00000055441 1 Not determined 17
si:busm1-194e12.12 HLA-DRB1 ENSDARG00000055447 None Not determined 35
si:busm1-194e12.12 HLA-DRB5 ENSDARG00000055447 None Not determined 6
si:busm1-194e12.12 HLA-DQB1 ENSDARG00000055447 None Not determined 24
si:busm1-228j01.3 HLA-DQA1 ENSDARG00000086294 2 Not determined 27
si:busm1-228j01.3 HLA-DQA2 ENSDARG00000086294 2 Not determined 17
si:busm1-228j01.4 HLA-DRB1 ENSDARG00000088872 2 Not determined 35
si:busm1-228j01.4 HLA-DRB5 ENSDARG00000088872 2 Not determined 6
si:busm1-228j01.4 HLA-DQB1 ENSDARG00000088872 2 Not determined 24
si:busm1-228j01.5 HLA-DQA1 ENSDARG00000079593 3 Not determined 27
si:busm1-228j01.5 HLA-DQA2 ENSDARG00000079593 3 Not determined 17
si:busm1-228j01.6 HLA-DRB1 ENSDARG00000041705 1 Not determined 35
si:busm1-228j01.6 HLA-DRB5 ENSDARG00000041705 1 Not determined 6
si:busm1-228j01.6 HLA-DQB1 ENSDARG00000041705 1 Not determined 24
si:ch1073-376g14.1 ZNF804B ENSDARG00000086290 5 Not determined 4
si:ch1073-403i13.1 HLA-DQA2 ENSDARG00000001832 None Not determined 17
si:ch1073-403i13.1 HLA-DQA1 ENSDARG00000001832 None Not determined 27
si:ch211-160b7.1 CTLA4 ENSDARG00000095070 None Not determined 9
si:ch211-223f21.2 VAV3 ENSDARG00000086623 None Not determined 1
si:ch211-255p13.2 VAV3 ENSDARG00000075962 4 Not determined 1
si:ch73-149o12.1 NAA25 ENSDARG00000075446 5 Not determined 1
si:ch73-211l2.3 HLA-DQA1 ENSDARG00000075932 1 Not determined 27
si:ch73-211l2.3 HLA-DQA2 ENSDARG00000075932 1 Not determined 17
si:dkey-165i4.1 ATXN2 ENSDARG00000052897 5 Normal 10
si:dkey-217m5.3 CCL2 ENSDARG00000041919 2 Not determined 4
si:dkeyp-118h9.7 SACS ENSDARG00000075668 11 Not determined 3
si:dkeyp-1d11.1 PDE8B ENSDARG00000063706 13 Not determined 5
si:dkeyp-1e8.2 SH2B3 ENSDARG00000093095 None Not determined 19
si:dkeyp-2h4.2 HLA-DQA1 ENSDARG00000031745 None Not determined 27
si:dkeyp-2h4.2 HLA-DQA2 ENSDARG00000031745 None Not determined 17
si:dkeyp-34f6.1 ZBTB10 ENSDARG00000077101 5 Not determined 3
si:dkeyp-59a8.1 CCL2 ENSDARG00000041923 None Not determined 4
si:dkeyp-59a8.2 CCL2 ENSDARG00000041835 None Not determined 4
si:dkeyp-59a8.3 CCL2 ENSDARG00000041917 None Not determined 4
si:zfos-2070c2.1 HLA-DQA1 ENSDARG00000070206 None Not determined 27
si:zfos-2070c2.1 HLA-DQA2 ENSDARG00000070206 None Not determined 17
si:zfos-2070c2.3 HLA-DRB1 ENSDARG00000076307 None Not determined 35
si:zfos-2070c2.3 HLA-DRB5 ENSDARG00000076307 None Not determined 6
si:zfos-2070c2.3 HLA-DQB1 ENSDARG00000076307 None Not determined 24
si:zfos-367g9.1 HLA-DQA1 ENSDARG00000074816 1 Not determined 27
si:zfos-367g9.1 HLA-DQA2 ENSDARG00000074816 1 Not determined 17
tnfrsf19 TNFRSF19 ENSDARG00000041869 2 Not determined 3
wu:fd58b11 HLA-DRB1 ENSDARG00000054921 None Not determined 35
wu:fd58b11 HLA-DRB5 ENSDARG00000054921 None Not determined 6
wu:fd58b11 HLA-DQB1 ENSDARG00000054921 None Not determined 24
zgc:123107 HLA-DQA1 ENSDARG00000020286 None Not determined 27
zgc:123107 HLA-DQA2 ENSDARG00000020286 None Not determined 17
zgc:123172 C9orf156 ENSDARG00000037245 None Not determined 1
zgc:153067 HLA-DRB1 ENSDARG00000056330 2 Not determined 35
zgc:153067 HLA-DRB5 ENSDARG00000056330 2 Not determined 6
zgc:153067 HLA-DQB1 ENSDARG00000056330 2 Not determined 24
zgc:158420 ZDHHC21 ENSDARG00000079660 None Not determined 2
zgc:175264 PHTF1 ENSDARG00000057708 4 Not determined 3

The following reported genes could not be linked automatically to a zebrafish gene:

  • ATP5LP4
  • C1QTNF6
  • C6orf15
  • DHFRP2
  • GUG
  • HCG22
  • HCP5
  • HLA-B
  • HLA-C
  • HLA-DRB9
  • KRT18P13
  • LOC100101246
  • LOC100129274
  • LOC100130480
  • LOC100131744
  • LOC285423
  • LOC729792
  • RPSAP47
  • TRNAH
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