GWAS906596_H QTL Report (Homo sapiens) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
QTL Registration

QTL: GWAS906596_H (total cholesterol measurement QTL GWAS906596 (human)) Homo sapiens

Symbol: GWAS906596_H
Name: total cholesterol measurement QTL GWAS906596 (human)
RGD ID: 407257620
Trait: total cholesterol measurement
Measurement Type: blood total cholesterol level   (CMO:0000051)    
LOD Score: Not Available
P Value: 8.0E-14
Variance: Not Available
Position
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh38177,633,142 - 7,633,143RGD_MAPPER_PIPELINEGRCh38
GRCh37177,536,460 - 7,536,461RGD_MAPPER_PIPELINEGRCh37
Population Stats: Not Available
JBrowse: View Region in Genome Browser (JBrowse)
Model



Experimental Data Annotations    Click to see Annotation Detail View

Clinical Measurement
Object SymbolSpeciesTermQualifierEvidenceWithReferenceNotesSourceOriginal Reference(s)
GWAS906596_HHumanblood total cholesterol level  IAGPrs55784804405850206Based on the EFO term IDGWAS_CATALOGPMID:33462484

Experimental Factor Annotations    Click to see Annotation Detail View
Object SymbolSpeciesTermQualifierEvidenceWithReferenceNotesSourceOriginal Reference(s)
GWAS906596_HHumantotal cholesterol measurement  IAGPrs55784804405850206 GWAS_CATALOGPMID:33462484
Experimental Data Annotations     Click to see Annotation Detail View

Clinical Measurement

References

References - curated
# 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

Region

Genes in Region
The following Genes overlap with this region.    Full Report CSV TAB Printer Analysis Tools
RGD IDSymbolNameChrStartStopSpecies
736172SHBGsex hormone binding globulin1776140647633372Human

Position Markers

Peak: (rs55784804)
Human AssemblyChrPosition (strand)Source
GRCh38177,633,142 - 7,633,143RGD_MAPPER_PIPELINE


QTLs in Region (GRCh38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
407257620GWAS906596_Htotal cholesterol measurement QTL GWAS906596 (human)8e-14total cholesterol measurementblood total cholesterol level (CMO:0000051)1776331427633143Human
407308208GWAS957184_Hlow density lipoprotein cholesterol measurement QTL GWAS957184 (human)4e-10low density lipoprotein cholesterol measurementblood low density lipoprotein cholesterol level (CMO:0000053)1776331427633143Human
407325040GWAS974016_Hsex hormone-binding globulin measurement QTL GWAS974016 (human)3e-511sex hormone-binding globulin measurement1776331427633143Human
407324413GWAS973389_Htestosterone measurement QTL GWAS973389 (human)3e-70testosterone measurementserum testosterone level (CMO:0000568)1776331427633143Human
407320348GWAS969324_HHbA1c measurement QTL GWAS969324 (human)7e-13HbA1c measurementblood hemoglobin A1c level (CMO:0002786)1776331427633143Human


Additional Information

GWAS QTLs Related by Peak Marker
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
GWAS906596_H GCST90019501 Total cholesterol levels 342,508 European ancestry individuals, 6,014 African ancestry individuals, 7,336 South Asian ancestry individuals T NR 8E-14 13.097 rs55784804 0.0296 total cholesterol measurement (EFO:0004574)
 PMID:33462484
GWAS957184_H GCST90019512 Low density lipoprotein cholesterol levels 341,875 European ancestry individuals, 6,003 African ancestry individuals, 7,319 South Asian ancestry individuals T NR 4E-10 9.398 rs55784804 0.0248 low density lipoprotein cholesterol measurement (EFO:0004611)
 PMID:33462484
GWAS969324_H GCST90019509 Glycated hemoglobin levels 327,177 European ancestry individuals, 4,847 African ancestry individuals, 6,895 South Asian ancestry individuals T NR 7E-13 12.155 rs55784804 0.0291 HbA1c measurement (EFO:0004541)
 PMID:33462484
GWAS973389_H GCST90019520 Testosterone levels 310,461 European ancestry individuals, 5,453 African ancestry individuals, 6,680 South Asian ancestry individuals T NR 3E-70 69.523 rs55784804 0.0737 testosterone measurement (EFO:0004908)
 PMID:33462484
GWAS974016_H GCST90019518 Sex hormone-binding globulin levels 310,323 European ancestry individuals, 5,523 African ancestry individuals, 6,638 South Asian ancestry individuals T NR 3E-511 510.523 rs55784804 0.2003 sex hormone-binding globulin measurement (EFO:0004696)
 PMID:33462484
Database Acc Id Source(s)
GWAS Catalog GCST90019501 GWAS Catalog

RGD Curation Notes
Note Type Note Reference