GWAS1670236_H QTL Report (Homo sapiens) - Rat Genome Database

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QTL Registration

QTL: GWAS1670236_H (Vitiligo QTL GWAS1670236 (human)) Homo sapiens

Symbol: GWAS1670236_H
Name: Vitiligo QTL GWAS1670236 (human)
RGD ID: 597613376
Trait: Vitiligo
LOD Score: Not Available
P Value: 5.0E-54
Variance: Not Available
Position
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh386396,321 - 396,322RGD_MAPPER_PIPELINEGRCh38
GRCh376396,321 - 396,322RGD_MAPPER_PIPELINEGRCh37
Population Stats: Not Available
JBrowse: View Region in Genome Browser (JBrowse)
Model



Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
GWAS1670236_HHumanvitiligo  IAGPrs12203592405850206 GWAS_CATALOGPMID:39024449

Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
GWAS1670236_HHumanVitiligo  IAGPrs12203592405850206 GWAS_CATALOGPMID:39024449
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
GWAS1670236_HHumanVitiligo  IAGPrs12203592405850206 GWAS_CATALOGPMID:39024449

#
Reference Title
Reference Citation
1. RGD GWAS Catalog Import Pipeline RGD pipeline to import data from GWAS Catalog and create human variant and QTL records


The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD ID
Symbol
Name
Chr
Start
Stop
Species
1317594IRF4interferon regulatory factor 46391752411443Human


Peak: (rs12203592)
Human AssemblyChrPosition (strand)Source
GRCh386396,321 - 396,322RGD_MAPPER_PIPELINE


1 to 10 of 122 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
597043094GWAS1139168_Heye colour measurement QTL GWAS1139168 (human)3e-14eye colour measurementeye morphological measurement (CMO:0003080)6396321396322Human
597149591GWAS1245665_Heye color QTL GWAS1245665 (human)3e-11eye color6396321396322Human
597150102GWAS1246176_Hskin sensitivity to sun QTL GWAS1246176 (human)8e-11skin sensitivity to sun6396321396322Human
597155222GWAS1251296_Hhair color QTL GWAS1251296 (human)2e-50hair color6396321396322Human
597591709GWAS1648569_Hseborrheic keratosis QTL GWAS1648569 (human)3e-158seborrheic keratosis6396321396322Human
597324703GWAS1420777_Hactinic keratosis QTL GWAS1420777 (human)8e-33actinic keratosis6396321396322Human
597609616GWAS1666476_Hbenign neoplasm of eye QTL GWAS1666476 (human)2e-79benign neoplasm of eye6396321396322Human
597047943GWAS1144017_Hsuntan QTL GWAS1144017 (human)1e-581suntan6396321396322Human
597613450GWAS1670310_Hrosacea QTL GWAS1670310 (human)2e-19rosacea6396321396322Human
597042816GWAS1138890_Heye colour measurement QTL GWAS1138890 (human)1e-12eye colour measurement6396321396322Human

1 to 10 of 122 rows


1 to 20 of 172 rows
Data has come from the GWAS Catalog   
The highlighted row represents the current QTL
QTL
GWAS Catalog Study
Disease Trait
Study Size
Risk Allele
Risk Allele Frequency
P Value
P Value MLOG
Peak Marker
Reported Odds Ratio or Beta-coefficient
Ontology Accession
PubMed
GWAS1670236_H GCST90480450 Dyschromia and Vitiligo (PheCode 694) 3,762 African American or Afro-Caribbean cases, 112,106 African American or Afro-Caribbean controls, 1,756 Hispanic or Latin American cases, 55,360 Hispanic or Latin American controls, 207 East Asian ancestry cases, 6,295 East Asian ancestry controls, 14,580 European ancestry cases, 409,977 European ancestry controls C 0.8722 5E-54 53.302 rs12203592 0.252 Vitiligo (EFO:0004208)
 PMID:39024449
GWAS1699814_H GCST003478 Hair greying 6,357 Latin American individuals ? NR 3E-13 12.523 rs12203592 N/A strand of hair color (OBA:0002313)
 PMID:26926045
GWAS1699826_H GCST003479 Hair color 6,357 Latin American individuals ? NR 1E-13 13 rs12203592 N/A strand of hair color (OBA:0002313)
 PMID:26926045
GWAS1699856_H GCST002906 Skin colour saturation 5,857 European ancestry individuals T 0.0919412668601673 3E-9 8.523 rs12203592 0.010126092 Abnormality of skin pigmentation (HP:0001000)
 PMID:25963972
GWAS1699920_H GCST001940 Non-melanoma skin cancer 6,747 European ancestry individuals T NR 7E-14 13.155 rs12203592 0.21 Abnormality of skin pigmentation (HP:0001000)
 PMID:23548203
GWAS1638109_H GCST90479537 Takes medication for skin cancer? 351 African American or Afro-Caribbean cases, 55,154 African American or Afro-Caribbean controls, 5,688 European ancestry cases, 309,980 European ancestry controls C 0.8592 2E-51 50.699 rs12203592 0.3929 drug use measurement (EFO:0007010)
 PMID:39024449
GWAS1638377_H GCST90479538 Skin cancer 431 African American or Afro-Caribbean cases, 55,074 African American or Afro-Caribbean controls, 55,282 European ancestry cases, 260,386 European ancestry controls, 979 Hispanic or Latin American cases, 28,335 Hispanic or Latin American controls C 0.8629 3E-265 264.523 rs12203592 0.3714 PMID:39024449
GWAS1639361_H GCST90475577 Melanomas of skin, dx or hx (PheCode 172.1) 45,274 European ancestry cases, 389,597 European ancestry controls C 0.8403 2E-298 297.699 rs12203592 0.356 cutaneous melanoma (EFO:0000389)
 PMID:39024449
GWAS1639565_H GCST90475580 Other non-epithelial cancer of skin (PheCode 172.2) 68,143 European ancestry cases, 360,898 European ancestry controls C 0.84 1E-323 323 rs12203592 0.394 skin neoplasm (EFO:0004198)
 PMID:39024449
None Available GCST90475602 Malignant neoplasm, other (PheCode 195.1) 6,441 European ancestry cases, 434,830 European ancestry controls C 0.8397 2E-11 10.699 rs12203592 0.1696 PMID:39024449
GWAS1639698_H GCST90475603 Malignant neoplasm of head, face, and neck (PheCode 195.3) 4,578 European ancestry cases, 442,171 European ancestry controls C 0.8396 5E-18 17.302 rs12203592 0.2561 head and neck malignant neoplasia (EFO:0006859)
 PMID:39024449
None Available GCST90475606 Neoplasm of uncertain behavior (PheCode 199) 18,252 European ancestry cases, 403,292 European ancestry controls C 0.8399 9E-13 12.046 rs12203592 0.1103 PMID:39024449
GWAS1642341_H GCST90475583 Squamous cell carcinoma (PheCode 172.22) 19,217 European ancestry cases, 419,674 European ancestry controls C 0.8402 3E-238 237.523 rs12203592 0.4675 squamous cell carcinoma (EFO:0000707)
 PMID:39024449
GWAS1704817_H GCST011100 Aging traits (healthspan, parental lifespan or longevity) (multivariate analysis) at least 837,415 European ancestry individuals C 0.81 8E-26 25.097 rs12203592 N/A healthspan (EFO:0009762)
parental longevity (EFO:0007796)
life span trait (OBA:VT0005372)
 PMID:32678081
GWAS1642837_H GCST90475585 Neoplasm of uncertain behavior of skin (PheCode 173) 59,327 European ancestry cases, 338,779 European ancestry controls C 0.84 3E-236 235.523 rs12203592 0.2859 skin neoplasm (EFO:0004198)
 PMID:39024449
GWAS1643016_H GCST90475582 Basal cell carcinoma (PheCode 172.21) 31,142 European ancestry cases, 404,406 European ancestry controls C 0.8403 3E-233 232.523 rs12203592 0.3656 basal cell carcinoma (EFO:0004193)
 PMID:39024449
GWAS1643129_H GCST90479570 Biological Father: Cancer, Skin 218 African American or Afro-Caribbean cases, 55,287 African American or Afro-Caribbean controls, 20,871 European ancestry cases, 294,797 European ancestry controls, 632 Hispanic or Latin American cases, 28,682 Hispanic or Latin American controls C 0.8629 4E-29 28.398 rs12203592 0.1659 family history of cancer (EFO:0009640)
 PMID:39024449
GWAS1706064_H GCST90002407 White blood cell count 408,112 British individuals T 0.219941 2E-18 17.699 rs12203592 0.022975089 leukocyte quantity (OBA:VT0000217)
 PMID:32888494
GWAS1644086_H GCST90475574 Skin cancer 2,247 Hispanic or Latin American cases, 56,654 Hispanic or Latin American controls C 0.9111 8E-12 11.097 rs12203592 0.3587 PMID:39024449
GWAS1126062_H GCST008870 Keratinocyte cancer (MTAG) at least 18,538 European ancestry cases, at least 340,302 European ancestry controls T 0.222781 2E-302 301.699 rs12203592 1.45 keratinocyte carcinoma (EFO:0010176)
 PMID:31174203
1 to 20 of 172 rows
Database
Acc Id
Source(s)
GWAS Catalog GCST90480450 GWAS Catalog

Note Type Note Reference