GWAS600834_H QTL Report (Homo sapiens) - Rat Genome Database

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QTL Registration

QTL: GWAS600834_H (skin pigmentation measurement QTL GWAS600834 (human)) Homo sapiens

Symbol: GWAS600834_H
Name: skin pigmentation measurement QTL GWAS600834 (human)
RGD ID: 406951858
Trait: skin pigmentation measurement
LOD Score: Not Available
P Value: 5.0E-11
Variance: Not Available
Position
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh381528,156,194 - 28,156,195RGD_MAPPER_PIPELINEGRCh38
GRCh371528,401,340 - 28,401,341RGD_MAPPER_PIPELINEGRCh37
Population Stats: Not Available
JBrowse: View Region in Genome Browser (JBrowse)
Model



Experimental Factor Annotations    Click to see Annotation Detail View
Object SymbolSpeciesTermQualifierEvidenceWithReferenceNotesSourceOriginal Reference(s)
GWAS600834_HHumanskin pigmentation measurement  IAGPrs28784029405850206 GWAS_CATALOGPMID:36672889
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
1317498HERC2HECT and RLD domain containing E3 ubiquitin protein ligase 2152811104028322179Human

Position Markers

Peak: (rs28784029)
Human AssemblyChrPosition (strand)Source
GRCh381528,156,194 - 28,156,195RGD_MAPPER_PIPELINE


QTLs in Region (GRCh38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2289410BW327_HBody weight QTL 327 (human)3.320.0001Body fat amount151998012945980129Human
1643273BW330_HBody Weight QTL 330 (human)1.050.014Body weightbody mass index152686671952866719Human
406949633GWAS598609_Hhair color QTL GWAS598609 (human)6e-20hair color152815619428156195Human
406954048GWAS603024_Heye color QTL GWAS603024 (human)2e-150eye color152815619428156195Human
406955507GWAS604483_Hskin pigmentation measurement QTL GWAS604483 (human)2e-44skin pigmentation measurement152815619428156195Human
406951858GWAS600834_Hskin pigmentation measurement QTL GWAS600834 (human)5e-11skin pigmentation measurement152815619428156195Human
2289430BMD7_HBone mineral density QTL 7 (human)3.320.0001Bone mineral density151998012945980129Human
1559411SCL107_HSerum cholesterol level QTL 107 (human)3.88Lipid leveltriglyceride152654355252543552Human
1643523BW284_HBody Weight QTL 284 (human)1.950.0013Body weight152179288947792889Human
406949821GWAS598797_Hskin pigmentation measurement QTL GWAS598797 (human)1e-39skin pigmentation measurement152815619428156195Human
2289420BW314_HBody weight QTL 314 (human)2.720.0003Body weightlean mass151998012945980129Human


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
GWAS598609_H GCST90255682 Blond vs. brown/black hair color 243 Iberian ancestry cases, 4,702 Iberian ancestry controls T 0.152593 6E-20 19.222 rs28784029 1.06068 hair color (EFO:0003924)
 PMID:36672889
GWAS598797_H GCST90255689 Skin color (Fitzpatrick scale) 4,933 Iberian ancestry individuals T 0.152997 1E-39 39 rs28784029 0.271497 skin pigmentation measurement (EFO:0007009)
 PMID:36672889
GWAS600834_H GCST90255690 Skin color 4,985 Iberian ancestry individuals T 0.153201 5E-11 10.302 rs28784029 0.157295 skin pigmentation measurement (EFO:0007009)
 PMID:36672889
GWAS603024_H GCST90255684 Eye color 4,987 Iberian ancestry individuals T 0.1531 2E-150 149.699 rs28784029 0.833056 eye color (EFO:0003949)
 PMID:36672889
GWAS604483_H GCST90255688 Skin phototype score 4,933 Iberian ancestry individuals T 0.152997 2E-44 43.699 rs28784029 5.56351 skin pigmentation measurement (EFO:0007009)
 PMID:36672889
Database Acc Id Source(s)
GWAS Catalog GCST90255690 GWAS Catalog

RGD Curation Notes
Note Type Note Reference