GWAS1664162_H QTL Report (Homo sapiens) - Rat Genome Database

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QTL Registration

QTL: GWAS1664162_H (skin neoplasm QTL GWAS1664162 (human)) Homo sapiens

Symbol: GWAS1664162_H
Name: skin neoplasm QTL GWAS1664162 (human)
RGD ID: 597607302
Trait: skin neoplasm
LOD Score: Not Available
P Value: 1.0E-29
Variance: Not Available
Position
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh38690,296,024 - 90,296,025RGD_MAPPER_PIPELINEGRCh38
GRCh37691,005,743 - 91,005,744RGD_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)
GWAS1664162_HHumanskin benign neoplasm  IAGPrs6908626405850206 GWAS_CATALOGPMID:39024449
GWAS1664162_HHumanskin cancer  IAGPrs6908626405850206 GWAS_CATALOGPMID:39024449
GWAS1664162_HHumanSkin Neoplasms  IAGPrs6908626405850206 GWAS_CATALOGPMID:39024449

Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
GWAS1664162_HHumanNeoplasm of the skin  IAGPrs6908626405850206 GWAS_CATALOGPMID:39024449
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
GWAS1664162_HHumanskin neoplasm  IAGPrs6908626405850206 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
1319503BACH2BTB domain and CNC homolog 268992652890296843Human
329838096LOC129996837ATAC-STARR-seq lymphoblastoid silent region 1739769029602290296081Human


Peak: (rs6908626)
Human AssemblyChrPosition (strand)Source
GRCh38690,296,024 - 90,296,025RGD_MAPPER_PIPELINE


1 to 10 of 13 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
597328094GWAS1424168_Hbasal cell carcinoma QTL GWAS1424168 (human)4e-24basal cell carcinoma69029602490296025Human
597279420GWAS1375494_Hhyperthyroidism QTL GWAS1375494 (human)2e-08hyperthyroidism69029602490296025Human
597344319GWAS1440393_Hlymphocyte measurement QTL GWAS1440393 (human)6e-12lymphocyte measurement69029602490296025Human
1298426BFD3_HBody fluid distribution QTL 3 (human)2.790.01Body fluid distributionimpedance ratio684873647110873647Human
597031007GWAS1127081_Hbasal cell carcinoma QTL GWAS1127081 (human)7e-20basal cell carcinoma69029602490296025Human
596979358GWAS1098877_Hhyperthyroidism QTL GWAS1098877 (human)2e-08hyperthyroidism69029602490296025Human
597047782GWAS1143856_Hchildhood onset asthma QTL GWAS1143856 (human)5e-15childhood onset asthma69029602490296025Human
597585903GWAS1642763_Hbasal cell carcinoma QTL GWAS1642763 (human)1e-24basal cell carcinoma69029602490296025Human
597045316GWAS1141390_Hcutaneous melanoma QTL GWAS1141390 (human)4e-09cutaneous melanoma69029602490296025Human
597082976GWAS1179050_Hlymphocyte percentage of leukocytes QTL GWAS1179050 (human)2e-10lymphocyte quantity (VT:0000717)blood lymphocyte count to total leukocyte count ratio (CMO:0000371)69029602490296025Human

1 to 10 of 13 rows


1 to 12 of 12 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
GWAS1664162_H GCST90479797 Other non-epithelial cancer of skin (PheCode 172.2) 709 African American or Afro-Caribbean cases, 120,241 African American or Afro-Caribbean controls, 68,143 European ancestry cases, 360,898 European ancestry controls, 1,847 Hispanic or Latin American cases, 57,159 Hispanic or Latin American controls G 0.8663 1E-29 29 rs6908626 0.1122 skin neoplasm (EFO:0004198)
 PMID:39024449
GWAS1642763_H GCST90475582 Basal cell carcinoma (PheCode 172.21) 31,142 European ancestry cases, 404,406 European ancestry controls G 0.8391 1E-24 24 rs6908626 0.1178 basal cell carcinoma (EFO:0004193)
 PMID:39024449
GWAS1127081_H GCST008871 Basal cell carcinoma 31,787 European ancestry cases, 619,351 European ancestry controls G 0.843994 7E-20 19.155 rs6908626 1.1111112 basal cell carcinoma (EFO:0004193)
 PMID:31174203
GWAS1141390_H GCST010304 Cutaneous malignant melanoma 36,760 European ancestry cases, 375,188 European ancestry controls G 0.844 4E-9 8.398 rs6908626 1.0861 cutaneous melanoma (EFO:0000389)
 PMID:32341527
GWAS1143856_H GCST009841 Asthma (childhood onset) 13,435 European ancestry cases, 393,186 European ancestry controls ? NR 5E-15 14.302 rs6908626 N/A PMID:31669095
GWAS1179050_H GCST90002389 Lymphocyte percentage of white cells 408,112 British individuals T 0.178171 2E-10 9.699 rs6908626 0.018583471 lymphocyte percentage of leukocytes (EFO:0007993)
 PMID:32888494
GWAS1259286_H GCST90018862 Hypothyroidism 30,155 European ancestry cases, 379,986 European ancestry controls, 1,114 East Asian ancestry cases, 172,656 East Asian ancestry controls T NR 2E-24 23.699 rs6908626 0.1441 hypothyroidism (EFO:0004705)
 PMID:34594039
GWAS1259858_H GCST90018921 Skin cancer 25,928 European ancestry cases, 466,275 European ancestry controls, 154 East Asian ancestry cases, 178,572 East Asian ancestry controls T NR 3E-11 10.523 rs6908626 0.0842 skin neoplasm (EFO:0004198)
 PMID:34594039
GWAS1375494_H GCST90319319 Hyperthyroidism 6,442 European ancestry cases, 736,566 European ancestry controls T NR 2E-8 7.699 rs6908626 1.17 hyperthyroidism (EFO:0009189)
 PMID:39067062
GWAS1424168_H GCST90328134 Basal cell carcinoma 49,905 European ancestry cases, 752,392 European ancestry controls, 626 Hispanic or Latin American cases, 9,842 Hispanic or Latin American controls T NR 4E-24 23.398 rs6908626 0.9065 basal cell carcinoma (EFO:0004193)
 PMID:38182794
None Available GCST90328132 Basal cell carcinoma 49,905 European ancestry cases, 752,392 European ancestry controls T NR 2E-24 23.699 rs6908626 0.9057 basal cell carcinoma (EFO:0004193)
 PMID:38182794
GWAS1440393_H GCST90281246 Lymphocyte side scatter 39,646 European ancestry individuals T 0.1802 6E-12 11.222 rs6908626 0.0636029 lymphocyte measurement (EFO:0803546)
 PMID:37596262
1 to 12 of 12 rows
Database
Acc Id
Source(s)
GWAS Catalog GCST90479797 GWAS Catalog

Note Type Note Reference