GWAS773208_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: GWAS773208_H (esterified cholesterol measurement, low density lipoprotein cholesterol measurement QTL GWAS773208 (human)) Homo sapiens

Symbol: GWAS773208_H
Name: esterified cholesterol measurement, low density lipoprotein cholesterol measurement QTL GWAS773208 (human)
RGD ID: 407124232
Trait: esterified cholesterol measurement, low density lipoprotein cholesterol measurement
Measurement Type: blood low density lipoprotein cholesterol level   (CMO:0000053)    
LOD Score: Not Available
P Value: 5.0E-11
Variance: Not Available
Position
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh3814105,773,531 - 105,773,532RGD_MAPPER_PIPELINEGRCh38
GRCh3714106,239,868 - 106,239,869RGD_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)
GWAS773208_HHumanblood low density lipoprotein cholesterol level  IAGPrs2853880405850206Based on the EFO term IDGWAS_CATALOGPMID:38448586

Experimental Factor Annotations    Click to see Annotation Detail View
Object SymbolSpeciesTermQualifierEvidenceWithReferenceNotesSourceOriginal Reference(s)
GWAS773208_HHumanesterified cholesterol measurement  IAGPrs2853880405850206 GWAS_CATALOGPMID:38448586
GWAS773208_HHumanlow density lipoprotein cholesterol measurement  IAGPrs2853880405850206 GWAS_CATALOGPMID:38448586
Experimental Data Annotations     Click to see Annotation Detail View

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
735342IGHimmunoglobulin heavy locus14105586437106879844Human

Position Markers

Peak: (rs2853880)
Human AssemblyChrPosition (strand)Source
GRCh3814105,773,531 - 105,773,532RGD_MAPPER_PIPELINE


QTLs in Region (GRCh38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
407127815GWAS776791_Hlow density lipoprotein cholesterol measurement, phospholipids:total lipids ratio QTL GWAS776791 (human)4e-28low density lipoprotein cholesterol measurement, phospholipids:total lipids ratioblood low density lipoprotein cholesterol level (CMO:0000053)14105773531105773532Human
407124823GWAS773799_Hlow density lipoprotein cholesterol measurement, free cholesterol:total lipids ratio QTL GWAS773799 (human)8e-25low density lipoprotein cholesterol measurement, free cholesterol:total lipids ratioblood low density lipoprotein cholesterol level (CMO:0000053)14105773531105773532Human
407095205GWAS744181_Hlow density lipoprotein cholesterol measurement, free cholesterol:total lipids ratio QTL GWAS744181 (human)2e-22low density lipoprotein cholesterol measurement, free cholesterol:total lipids ratioblood low density lipoprotein cholesterol level (CMO:0000053)14105773531105773532Human
407112675GWAS761651_Hlow density lipoprotein cholesterol measurement, phospholipids:total lipids ratio QTL GWAS761651 (human)6e-15low density lipoprotein cholesterol measurement, phospholipids:total lipids ratioblood low density lipoprotein cholesterol level (CMO:0000053)14105773531105773532Human
407124232GWAS773208_Hesterified cholesterol measurement, low density lipoprotein cholesterol measurement QTL GWAS773208 (human)5e-11esterified cholesterol measurement, low density lipoprotein cholesterol measurementblood low density lipoprotein cholesterol level (CMO:0000053)14105773531105773532Human
406952749GWAS601725_HHLA class II histocompatibility antigen, DM alpha chain measurement QTL GWAS601725 (human)2e-29HLA class II histocompatibility antigen, DM alpha chain measurement14105773531105773532Human


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
GWAS601725_H GCST90241448 HLA class II histocompatibility antigen, DM alpha chain levels (HLA.DMA.10639.1.3) 3,301 European ancestry individuals G 0.34 2E-29 28.699 rs2853880 0.31 HLA class II histocompatibility antigen, DM alpha chain measurement (EFO:0801684)
 PMID:29875488
GWAS744181_H GCST90302048 Free cholesterol to total lipids ratio in medium LDL 4,435 East Asian ancestry individuals, 11,340 South Asian ancestry individuals, 120,241 European ancestry individuals C 0.6457 2E-22 21.699 rs2853880 0.0561 low density lipoprotein cholesterol measurement (EFO:0004611)
free cholesterol:total lipids ratio (EFO:0020945)
 PMID:38448586
GWAS761651_H GCST90302016 Phospholipids to total lipids ratio in large LDL 4,435 East Asian ancestry individuals, 11,340 South Asian ancestry individuals, 120,241 European ancestry individuals C 0.6456 6E-15 14.222 rs2853880 0.0447 low density lipoprotein cholesterol measurement (EFO:0004611)
phospholipids:total lipids ratio (EFO:0020946)
 PMID:38448586
GWAS773208_H GCST90302093 Cholesterol esters in small LDL 4,435 East Asian ancestry individuals, 11,340 South Asian ancestry individuals, 120,241 European ancestry individuals C 0.6456 5E-11 10.302 rs2853880 0.0377 esterified cholesterol measurement (EFO:0008589)
low density lipoprotein cholesterol measurement (EFO:0004611)
 PMID:38448586
GWAS773799_H GCST90302096 Free cholesterol to total lipids ratio in small LDL 4,435 East Asian ancestry individuals, 11,340 South Asian ancestry individuals, 120,241 European ancestry individuals C 0.6451 8E-25 24.097 rs2853880 0.0596 low density lipoprotein cholesterol measurement (EFO:0004611)
free cholesterol:total lipids ratio (EFO:0020945)
 PMID:38448586
GWAS776791_H GCST90302100 Phospholipids to total lipids ratio in small LDL 4,435 East Asian ancestry individuals, 11,340 South Asian ancestry individuals, 120,241 European ancestry individuals C 0.6456 4E-28 27.398 rs2853880 0.0632 low density lipoprotein cholesterol measurement (EFO:0004611)
phospholipids:total lipids ratio (EFO:0020946)
 PMID:38448586
Database Acc Id Source(s)
GWAS Catalog GCST90302093 GWAS Catalog

RGD Curation Notes
Note Type Note Reference