GWAS

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

Genome-wide meta-analysis increases to 71 the number of confirmed Crohn's disease susceptibility 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
atg16l1 ATG16L1 ENSDARG00000057430 None Not determined 8
bach2 BACH2 ENSDARG00000004074 2 Not determined 14
BSN (2 of 2) BSN ENSDARG00000079822 22 Not determined 4
BSN (1 of 2) BSN ENSDARG00000079161 11 Not determined 4
card9 CARD9 ENSDARG00000067672 1 Not determined 9
ccr6a CCR6 ENSDARG00000087474 3 Not determined 7
ccr6b CCR6 ENSDARG00000038968 2 Not determined 7
cdkal1 CDKAL1 ENSDARG00000022122 2 Not determined 23
cpeb4 CPEB4 ENSDARG00000056691 None Not determined 4
CPEB4 (1 of 3) CPEB4 ENSDARG00000060495 None Not determined 4
dnmt6 DNMT3A ENSDARG00000015566 1 Not determined 3
dnmt8 DNMT3A ENSDARG00000005394 5 Normal 3
eif3c EIF3C ENSDARG00000016443 None Not determined 3
esrra ESRRA ENSDARG00000069266 None Not determined 1
esrrd ESRRA ENSDARG00000015064 None Not determined 1
faslg FASLG ENSDARG00000011520 None Not determined 3
fignl1 FIGNL1 ENSDARG00000016427 1 Not determined 1
galca GALC ENSDARG00000037064 1 Not determined 3
galcb GALC ENSDARG00000016474 3 Not determined 3
GPR65 GPR65 ENSDARG00000045957 1 Not determined 3
gpx1a GPX1 ENSDARG00000018146 None Not determined 2
gpx1b GPX1 ENSDARG00000006207 1 Not determined 2
gpx4a GPX4 ENSDARG00000068478 2 Not determined 2
gpx4b GPX4 ENSDARG00000076836 None Not determined 2
ikzf1 IKZF1 ENSDARG00000013539 4 Not determined 10
il10 IL10 ENSDARG00000078147 4 Normal 11
il12ba IL12B ENSDARG00000033727 2 Not determined 14
il34 IL19 ENSDARG00000090344 None Not determined 4
irf1 IRF1 ENSDARG00000043492 None Not determined 6
irf11 IRF1 ENSDARG00000032768 1 Not determined 6
irgf1 IRGM ENSDARG00000070774 3 Not determined 5
irgf2 IRGM ENSDARG00000092249 1 Not determined 5
irgf3 IRGM ENSDARG00000062820 None Not determined 5
irgq2 IRGM ENSDARG00000068657 None Not determined 5
itln1 ITLN1 ENSDARG00000007534 None Not determined 3
itln2 ITLN1 ENSDARG00000036084 None Not determined 3
itln2 ITLN1 ENSDARG00000093796 1 Not determined 3
itln3 ITLN1 ENSDARG00000003523 3 Not determined 3
itln4 ITLN1 ENSDARG00000053630 2 Normal 3
jak2a JAK2 ENSDARG00000007915 2 Not determined 8
jak2b JAK2 ENSDARG00000018882 5 Not determined 8
LOC100000685 SLC22A5 ENSDARG00000068603 1 Not determined 5
LOC100000685 SLC22A4 ENSDARG00000068603 1 Not determined 5
LOC100001799 IL12B ENSDARG00000069504 1 Not determined 14
LOC100151130 RASIP1 ENSDARG00000074829 1 Not determined 4
LOC100329651 MUC19 ENSDARG00000057436 None Not determined 3
LOC100331628 TNFSF11 ENSDARG00000068141 1 Not determined 3
LOC100332780 ZMIZ1 ENSDARG00000076477 3 Not determined 10
LOC100333044 GCKR ENSDARG00000086620 None Not determined 39
LOC100333151 CPEB4 ENSDARG00000074474 2 Not determined 4
LOC100333801 MTMR3 ENSDARG00000089046 4 Not determined 6
LOC555649 SP140 ENSDARG00000090449 4 Not determined 4
LOC557210 BACH2 ENSDARG00000036569 4 Not determined 14
LOC564958 ITLN1 ENSDARG00000095082 1 Not determined 3
LOC565124 ITLN1 ENSDARG00000036085 None Not determined 3
LOC570502 KIF21B ENSDARG00000009733 8 Not determined 5
LOC799279 IL1RL1 ENSDARG00000090844 None Not determined 8
LOC799320 ZNF365 ENSDARG00000087985 1 Not determined 11
LRRK2 LRRK2 ENSDARG00000006169 6 Not determined 8
ndfip1 NDFIP1 ENSDARG00000013979 None Not determined 4
ndfip1l NDFIP1 ENSDARG00000008057 None Not determined 4
nkx2.3 NKX2-3 ENSDARG00000039095 None Not determined 10
nkx2.7 NKX2-3 ENSDARG00000021232 1 1 phenotype 10
nod2 NOD2 ENSDARG00000010756 3 Not determined 10
NP_694512.1 MST1 ENSDARG00000031855 2 Not determined 9
plcl1 PLCL1 ENSDARG00000067676 5 Not determined 7
prdm1a PRDM1 ENSDARG00000002445 3 Not determined 3
prdm1b PRDM1 ENSDARG00000053592 5 Not determined 3
prdm1c PRDM1 ENSDARG00000078161 None Not determined 3
prdx5 PRDX5 ENSDARG00000055064 None Not determined 3
ptger4a PTGER4 ENSDARG00000059236 2 Normal 12
ptger4b PTGER4 ENSDARG00000035415 1 Not determined 12
ptpn22 PTPN22 ENSDARG00000075062 5 Not determined 17
ptpn2a PTPN2 ENSDARG00000016481 4 Not determined 13
ptpn2b PTPN2 ENSDARG00000035986 2 Not determined 13
rel REL ENSDARG00000055276 4 Not determined 10
sbno2a SBNO2 ENSDARG00000003882 1 Not determined 1
sh2b1 SH2B1 ENSDARG00000057679 3 Not determined 4
si:busm1-160c18.1 HLA-DQA2 ENSDARG00000053739 2 Not determined 17
si:busm1-194e12.11 HLA-DQA2 ENSDARG00000055441 1 Not determined 17
si:busm1-228j01.3 HLA-DQA2 ENSDARG00000086294 2 Not determined 17
si:busm1-228j01.5 HLA-DQA2 ENSDARG00000079593 3 Not determined 17
si:ch1073-210b3.1 RTEL1 ENSDARG00000034243 None Not determined 7
si:ch1073-403i13.1 HLA-DQA2 ENSDARG00000001832 None Not determined 17
si:ch1073-409b12.4 SLC22A5 ENSDARG00000094112 None Not determined 5
si:ch1073-409b12.4 SLC22A4 ENSDARG00000094112 None Not determined 5
si:ch211-163l21.4 C1orf106 ENSDARG00000078155 1 Not determined 3
si:ch211-187f22.1 C13orf31 ENSDARG00000076914 None Not determined 2
si:ch211-195i21.1 DENND1B ENSDARG00000029374 1 Not determined 3
si:ch211-213n8.3 IL12B ENSDARG00000054542 1 Not determined 14
si:ch211-217k17.9 MUC1 ENSDARG00000093494 None Not determined 2
si:ch211-234e14.2 PTGER4 ENSDARG00000079907 None Not determined 12
si:ch73-100n10.1 MTMR3 ENSDARG00000093364 2 Not determined 6
si:ch73-211l2.3 HLA-DQA2 ENSDARG00000075932 1 Not determined 17
si:ch73-233m11.2 NOD2 ENSDARG00000091859 None Not determined 10
si:ch73-63e15.2 SBNO2 ENSDARG00000016188 2 Not determined 1
si:dkey-108d22.4 BSN ENSDARG00000063299 14 Normal 4
si:dkey-177e13.4 CREM ENSDARG00000023217 1 Not determined 2
si:dkey-19f23.4 SBNO2 ENSDARG00000094178 1 Not determined 1
si:dkey-217m5.3 CCL7 ENSDARG00000041919 2 Not determined 2
si:dkey-217m5.3 CCL2 ENSDARG00000041919 2 Not determined 4
si:dkey-266j7.1 BSN ENSDARG00000012482 15 Not determined 4
si:dkeyp-2h4.2 HLA-DQA2 ENSDARG00000031745 None Not determined 17
si:dkeyp-59a8.1 CCL2 ENSDARG00000041923 None Not determined 4
si:dkeyp-59a8.1 CCL7 ENSDARG00000041923 None Not determined 2
si:dkeyp-59a8.2 CCL2 ENSDARG00000041835 None Not determined 4
si:dkeyp-59a8.2 CCL7 ENSDARG00000041835 None Not determined 2
si:dkeyp-59a8.3 CCL7 ENSDARG00000041917 None Not determined 2
si:dkeyp-59a8.3 CCL2 ENSDARG00000041917 None Not determined 4
si:zfos-2070c2.1 HLA-DQA2 ENSDARG00000070206 None Not determined 17
si:zfos-367g9.1 HLA-DQA2 ENSDARG00000074816 1 Not determined 17
slc22a4 SLC22A5 ENSDARG00000005335 2 Not determined 5
slc22a4 SLC22A4 ENSDARG00000005335 2 Not determined 5
slc2a4rg SLC2A4RG ENSDARG00000077762 5 Not determined 3
smad3a SMAD3 ENSDARG00000036096 2 Not determined 5
smad3b SMAD3 ENSDARG00000010207 2 Not determined 5
snapc4 SNAPC4 ENSDARG00000067673 1 Not determined 3
stat3 STAT3 ENSDARG00000022712 5 Not determined 7
tagap TAGAP ENSDARG00000043475 4 Not determined 7
tnfa TNF ENSDARG00000009511 3 Not determined 3
tnfa LTA ENSDARG00000009511 3 Not determined 2
tnfb LTA ENSDARG00000013598 2 Not determined 2
tnfb TNF ENSDARG00000013598 2 Not determined 3
TYK2 TYK2 ENSDARG00000020326 4 Not determined 6
ube2d1 UBE2D1 ENSDARG00000038576 None Not determined 2
vamp3 VAMP3 ENSDARG00000070161 1 Not determined 2
ydjc YDJC ENSDARG00000062655 None Not determined 4
zfp36l1a ZFP36L1 ENSDARG00000016154 None Not determined 4
zfp36l1b ZFP36L1 ENSDARG00000021443 None Not determined 4
zgc:101654 ORMDL3 ENSDARG00000025555 1 Not determined 14
zgc:103488 SCAMP3 ENSDARG00000016765 None Not determined 1
zgc:112054 CREM ENSDARG00000033660 None Not determined 2
zgc:113068 THADA ENSDARG00000053082 2 Not determined 10
zgc:113411 SP140 ENSDARG00000038133 1 Not determined 4
zgc:123107 HLA-DQA2 ENSDARG00000020286 None Not determined 17
zgc:153219 ITLN1 ENSDARG00000054054 2 Not determined 3
zgc:153953 C1orf106 ENSDARG00000070571 2 Not determined 3
zgc:171579 GPR65 ENSDARG00000039234 2 Not determined 3
zgc:172163 ERAP2 ENSDARG00000075029 2 Not determined 2
zgc:56039 C11orf30 ENSDARG00000059059 1 Not determined 5
zgc:66323 UBE2D1 ENSDARG00000029107 None Not determined 2
zgc:77799 TAGAP ENSDARG00000002353 None Not determined 7
zgc:77875 MTMR3 ENSDARG00000058305 2 Not determined 6
zmiz1 ZMIZ1 ENSDARG00000074502 10 Not determined 10

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

  • C2orf74
  • CD19
  • CD244
  • FADS1
  • FUT2
  • GSMDL
  • ICAM1
  • ICAM3
  • ICOSLG
  • IKZF3
  • IL12RL2
  • IL18R1
  • IL18RAP
  • IL23R
  • IL27
  • IL2RA
  • IL3
  • LAT
  • LRAP
  • LST1
  • LTB
  • MAP3K7IP1
  • MLX
  • TNFRS-F6B
  • TNFSF15
  • TNFSF18
  • TNFSF4
  • TNFSF8
  • ZPBP
  • ZPBP2
Short-link