GWAS1006713_H QTL Report (Homo sapiens) - Rat Genome Database

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QTL Registration

QTL: GWAS1006713_H (esterified cholesterol measurement, high density lipoprotein cholesterol measurement QTL GWAS1006713 (human)) Homo sapiens

Symbol: GWAS1006713_H
Name: esterified cholesterol measurement, high density lipoprotein cholesterol measurement QTL GWAS1006713 (human)
RGD ID: 407357737
Trait: esterified cholesterol measurement, high density lipoprotein cholesterol measurement
Measurement Type: blood high density lipoprotein cholesterol level   (CMO:0000052)    
LOD Score: Not Available
P Value: 4.0E-14
Variance: Not Available
Position
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh38398,698,056 - 98,698,057RGD_MAPPER_PIPELINEGRCh38
GRCh37398,416,900 - 98,416,901RGD_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)
GWAS1006713_HHumanblood high density lipoprotein cholesterol level  IAGPrs10935473405850206Based on the EFO term IDGWAS_CATALOGPMID:38448586

Experimental Factor Annotations    Click to see Annotation Detail View
Object SymbolSpeciesTermQualifierEvidenceWithReferenceNotesSourceOriginal Reference(s)
GWAS1006713_HHumanesterified cholesterol measurement  IAGPrs10935473405850206 GWAS_CATALOGPMID:38448586
GWAS1006713_HHumanhigh density lipoprotein cholesterol measurement  IAGPrs10935473405850206 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

Position Markers

Peak: (rs10935473)
Human AssemblyChrPosition (strand)Source
GRCh38398,698,056 - 98,698,057RGD_MAPPER_PIPELINE


QTLs in Region (GRCh38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
407316929GWAS965905_Hmyeloid white cell count QTL GWAS965905 (human)2e-13myeloid white cell countwhite blood cell count (CMO:0000027)39869805698698057Human
407255118GWAS904094_Hsialic acid-binding Ig-like lectin 9 measurement QTL GWAS904094 (human)3e-125sialic acid-binding Ig-like lectin 9 measurement39869805698698057Human
407365963GWAS1014939_He-selectin measurement QTL GWAS1014939 (human)6e-23e-selectin measurement39869805698698057Human
407211210GWAS860186_Huromodulin measurement QTL GWAS860186 (human)5e-295uromodulin measurement39869805698698057Human
407370580GWAS1019556_Hblood protein measurement QTL GWAS1019556 (human)2e-3465blood protein measurementblood protein measurement (CMO:0000028)39869805698698057Human
407352594GWAS1001570_Hfree cholesterol measurement, high density lipoprotein cholesterol measurement QTL GWAS1001570 (human)3e-09blood lipid amount (VT:0003949)blood high density lipoprotein cholesterol level (CMO:0000052)39869805698698057Human
407174108GWAS823084_Hmonocyte count QTL GWAS823084 (human)2e-40monocyte quantity (VT:0000223)blood monocyte count (CMO:0000032)39869805698698057Human
407352799GWAS1001775_Hlipid measurement, high density lipoprotein cholesterol measurement QTL GWAS1001775 (human)1e-08lipid measurement, high density lipoprotein cholesterol measurementblood high density lipoprotein cholesterol level (CMO:0000052)39869805698698057Human
407256927GWAS905903_Hcell surface glycoprotein CD200 receptor 1 measurement QTL GWAS905903 (human)1e-30cell surface glycoprotein CD200 receptor 1 measurement39869805698698057Human
407198623GWAS847599_Hinterleukin-1 receptor type 1 measurement QTL GWAS847599 (human)1e-40interleukin-1 receptor type 1 measurement39869805698698057Human
407352925GWAS1001901_Hhigh density lipoprotein cholesterol measurement QTL GWAS1001901 (human)3e-08high density lipoprotein cholesterol measurementblood high density lipoprotein cholesterol level (CMO:0000052)39869805698698057Human
407370268GWAS1019244_Hblood protein measurement QTL GWAS1019244 (human)3e-2779blood protein measurementblood protein measurement (CMO:0000028)39869805698698057Human
407357851GWAS1006827_Hlow density lipoprotein particle size measurement QTL GWAS1006827 (human)1e-09low density lipoprotein particle size measurementblood low density lipoprotein particle diameter (CMO:0002693)39869805698698057Human
407211481GWAS860457_Hvascular endothelial growth factor receptor 3 measurement QTL GWAS860457 (human)6e-227vascular endothelial growth factor receptor 3 measurement39869805698698057Human
407174105GWAS823081_Hprotein measurement QTL GWAS823081 (human)1e-35protein measurement39869805698698057Human
407320167GWAS969143_Hmyeloid white cell count QTL GWAS969143 (human)3e-15myeloid white cell countwhite blood cell count (CMO:0000027)39869805698698057Human
407191780GWAS840756_Hprotein measurement QTL GWAS840756 (human)9e-29tyrosine-protein kinase receptor Tie-1, soluble measurement39869805698698057Human
407164326GWAS813302_Hleukocyte count QTL GWAS813302 (human)8e-10leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)39869805698698057Human
407186978GWAS835954_Hprogrammed cell death 1 ligand 2 measurement QTL GWAS835954 (human)4e-52programmed cell death 1 ligand 2 measurement39869805698698057Human
407367456GWAS1016432_Hblood protein measurement QTL GWAS1016432 (human)5e-258blood protein measurementblood protein measurement (CMO:0000028)39869805698698057Human
407352288GWAS1001264_Htotal cholesterol measurement, high density lipoprotein cholesterol measurement QTL GWAS1001264 (human)2e-09total cholesterol measurement, high density lipoprotein cholesterol measurementblood high density lipoprotein cholesterol level (CMO:0000052)39869805698698057Human
407352366GWAS1001342_Hphospholipid measurement, high density lipoprotein cholesterol measurement QTL GWAS1001342 (human)1e-11phospholipid measurement, high density lipoprotein cholesterol measurementblood high density lipoprotein cholesterol level (CMO:0000052)39869805698698057Human
407208876GWAS857852_Ht-cell surface glycoprotein CD5 measurement QTL GWAS857852 (human)1e-303t-cell surface glycoprotein CD5 measurement39869805698698057Human
407365421GWAS1014397_Hblood protein measurement QTL GWAS1014397 (human)6e-47blood protein measurementblood protein measurement (CMO:0000028)39869805698698057Human
407364971GWAS1013947_Hblood protein measurement QTL GWAS1013947 (human)1e-1038blood protein measurementblood protein measurement (CMO:0000028)39869805698698057Human
407357737GWAS1006713_Hesterified cholesterol measurement, high density lipoprotein cholesterol measurement QTL GWAS1006713 (human)4e-14esterified cholesterol measurement, high density lipoprotein cholesterol measurementblood high density lipoprotein cholesterol level (CMO:0000052)39869805698698057Human
407367671GWAS1016647_Hblood protein measurement QTL GWAS1016647 (human)2e-57blood protein measurementblood protein measurement (CMO:0000028)39869805698698057Human
407175220GWAS824196_Hneutrophil count QTL GWAS824196 (human)2e-16neutrophil quantity (VT:0000222)blood neutrophil count (CMO:0000030)39869805698698057Human
407358838GWAS1007814_Htriglycerides in very large HDL measurement QTL GWAS1007814 (human)5e-16triglycerides in very large HDL measurement 39869805698698057Human
407343536GWAS992512_Hvascular endothelial growth factor receptor 3 measurement QTL GWAS992512 (human)1e-215vascular endothelial growth factor receptor 3 measurement39869805698698057Human
407382128GWAS1031104_Hsoluble gp130 measurement QTL GWAS1031104 (human)0.000009soluble gp130 measurement39869805698698057Human
407173245GWAS822221_Hmonocyte count QTL GWAS822221 (human)2e-44monocyte quantity (VT:0000223)blood monocyte count (CMO:0000032)39869805698698057Human
407192060GWAS841036_Htyrosine-protein kinase receptor Tie-1, soluble measurement QTL GWAS841036 (human)1e-102tyrosine-protein kinase receptor Tie-1, soluble measurement39869805698698057Human
407390898GWAS1039874_Hvascular endothelial growth factor receptor 3 measurement QTL GWAS1039874 (human)2e-155vascular endothelial growth factor receptor 3 measurement39869805698698057Human
407352058GWAS1001034_Hlipid measurement, high density lipoprotein cholesterol measurement QTL GWAS1001034 (human)1e-10lipid measurement, high density lipoprotein cholesterol measurementblood high density lipoprotein cholesterol level (CMO:0000052)39869805698698057Human
407398453GWAS1047429_Hprogrammed cell death 1 ligand 2 measurement QTL GWAS1047429 (human)5e-12programmed cell death 1 ligand 2 measurement39869805698698057Human


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
GWAS813302_H GCST90002407 White blood cell count 408,112 British individuals T 0.440183 8E-10 9.097 rs10935473 0.013647105 leukocyte count (EFO:0004308)
 PMID:32888494
GWAS822221_H GCST90002344 Monocyte count 639,696 African American or Afro-Caribbean, African ancestry, European ancestry, East Asian ancestry, Hispanic or Latin American and South Asian ancestry individuals T 0.444664 2E-44 43.699 rs10935473 N/A monocyte count (EFO:0005091)
 PMID:32888493
GWAS823081_H GCST010900 Protein quantitative trait loci 394 European ancestry individuals ? NR 1E-35 35 rs10935473 N/A protein measurement (EFO:0004747)
 PMID:32492067
GWAS823084_H GCST90002340 Monocyte count 521,594 European ancestry individuals T 0.441522 2E-40 39.699 rs10935473 0.025021 monocyte count (EFO:0005091)
 PMID:32888493
GWAS824196_H GCST90002351 Neutrophil count 519,288 European ancestry individuals T 0.441514 2E-16 15.699 rs10935473 0.015957 neutrophil count (EFO:0004833)
 PMID:32888493
GWAS835954_H GCST90248874 Programmed cell death 1 ligand 2 levels 10,708 European ancestry individuals T 0.45 4E-52 51.398 rs10935473 0.205 programmed cell death 1 ligand 2 measurement (EFO:0008268)
 PMID:34648354
GWAS840756_H GCST90249036 Phospholipid transfer protein levels 10,708 European ancestry individuals T 0.45 9E-29 28.046 rs10935473 0.15 protein measurement (EFO:0004747)
 PMID:34648354
GWAS841036_H GCST90250042 Tyrosine-protein kinase receptor Tie-1, soluble levels 10,708 European ancestry individuals T 0.45 1E-102 102 rs10935473 0.281 tyrosine-protein kinase receptor Tie-1, soluble measurement (EFO:0008312)
 PMID:34648354
GWAS847599_H GCST90248053 Interleukin-1 receptor type 1 levels 10,708 European ancestry individuals T 0.45 1E-40 40 rs10935473 0.172 interleukin-1 receptor type 1 measurement (EFO:0020487)
 PMID:34648354
GWAS857852_H GCST90249781 T-cell surface glycoprotein CD5 levels 10,708 European ancestry individuals T 0.45 1E-303 303 rs10935473 0.448 t-cell surface glycoprotein CD5 measurement (EFO:0803134)
 PMID:34648354
GWAS860186_H GCST90250141 Uromodulin levels 10,708 European ancestry individuals T 0.45 5E-295 294.302 rs10935473 0.445 uromodulin measurement (EFO:0021778)
 PMID:34648354
GWAS860457_H GCST90250165 Vascular endothelial growth factor receptor 3 levels 10,708 European ancestry individuals T 0.45 6E-227 226.222 rs10935473 0.401 vascular endothelial growth factor receptor 3 measurement (EFO:0008315)
 PMID:34648354
GWAS904094_H GCST90060056 Sialic acid-binding Ig-like lectin 9 levels 2,893 European ancestry individuals T 0.5379 3E-125 124.523 rs10935473 0.5736 sialic acid-binding Ig-like lectin 9 measurement (EFO:0008286)
 PMID:34857772
GWAS905903_H GCST90059915 Cell surface glycoprotein CD200 receptor 1 levels 2,893 European ancestry individuals T 0.5375 1E-30 30 rs10935473 0.3117 cell surface glycoprotein CD200 receptor 1 measurement (EFO:0020253)
 PMID:34857772
GWAS965905_H GCST90002378 White blood cell count 746,667 African American or Afro-Caribbean, African ancestry, European ancestry, East Asian ancestry, Hispanic or Latin American and South Asian ancestry individuals T 0.449586 2E-13 12.699 rs10935473 N/A myeloid white cell count (EFO:0007988)
 PMID:32888493
GWAS969143_H GCST90002374 White blood cell count 562,243 European ancestry individuals T 0.442233 3E-15 14.523 rs10935473 0.014641 myeloid white cell count (EFO:0007988)
 PMID:32888493
GWAS992512_H GCST90243324 Vascular endothelial growth factor receptor 3 levels (FLT4.2358.19.2) 3,301 European ancestry individuals T 0.444 1E-215 215 rs10935473 0.69 vascular endothelial growth factor receptor 3 measurement (EFO:0008315)
 PMID:29875488
GWAS1001034_H GCST90093010 Total lipid levels in very large HDL 115,082 European ancestry individuals G 0.557568 1E-10 10 rs10935473 0.0240551 lipid measurement (EFO:0004529)
high density lipoprotein cholesterol measurement (EFO:0004612)
 PMID:35213538
GWAS1001264_H GCST90093004 Cholesterol levels in very large HDL 115,082 European ancestry individuals G 0.557568 2E-9 8.699 rs10935473 0.0224869 total cholesterol measurement (EFO:0004574)
high density lipoprotein cholesterol measurement (EFO:0004612)
 PMID:35213538
GWAS1001342_H GCST90093012 Phospholipid levels in very large HDL 115,082 European ancestry individuals G 0.557568 1E-11 11 rs10935473 0.0252662 phospholipid measurement (EFO:0004639)
high density lipoprotein cholesterol measurement (EFO:0004612)
 PMID:35213538
GWAS1001570_H GCST90093008 Free cholesterol levels in very large HDL 115,082 European ancestry individuals G 0.557568 3E-9 8.523 rs10935473 0.0229274 free cholesterol measurement (EFO:0008591)
high density lipoprotein cholesterol measurement (EFO:0004612)
 PMID:35213538
GWAS1001775_H GCST90092950 Total lipid levels in small HDL 115,082 European ancestry individuals G 0.557568 1E-8 8 rs10935473 0.02352 lipid measurement (EFO:0004529)
high density lipoprotein cholesterol measurement (EFO:0004612)
 PMID:35213538
GWAS1001901_H GCST90093011 Concentration of very large HDL particles 115,082 European ancestry individuals G 0.557568 3E-8 7.523 rs10935473 0.0208142 high density lipoprotein cholesterol measurement (EFO:0004612)
 PMID:35213538
None Available GCST90243207 Tyrosine-protein kinase receptor Tie-1, soluble levels (TIE1.2844.53.2) 3,301 European ancestry individuals T 0.444 9E-29 28.046 rs10935473 0.27 tyrosine-protein kinase receptor Tie-1, soluble measurement (EFO:0008312)
 PMID:29875488
None Available GCST90093006 Cholesteryl ester levels in very large HDL 115,082 European ancestry individuals G 0.557568 3E-9 8.523 rs10935473 0.0221487 cholesteryl ester measurement (EFO:0010351)
high density lipoprotein cholesterol measurement (EFO:0004612)
 PMID:35213538
GWAS1006713_H GCST90302081 Cholesterol esters in small HDL 4,435 East Asian ancestry individuals, 11,340 South Asian ancestry individuals, 120,241 European ancestry individuals T 0.4413 4E-14 13.398 rs10935473 0.0299 esterified cholesterol measurement (EFO:0008589)
high density lipoprotein cholesterol measurement (EFO:0004612)
 PMID:38448586
GWAS1006827_H GCST90301992 Mean diameter of LDL particles 4,435 East Asian ancestry individuals, 11,340 South Asian ancestry individuals, 120,241 European ancestry individuals T 0.4417 1E-9 9 rs10935473 0.0248 low density lipoprotein particle size measurement (EFO:0008593)
 PMID:38448586
GWAS1007814_H GCST90302136 Triglycerides in very large HDL 4,435 East Asian ancestry individuals, 11,340 South Asian ancestry individuals, 120,241 European ancestry individuals T 0.4417 5E-16 15.302 rs10935473 0.033 triglycerides in very large HDL measurement (EFO:0022324)
 PMID:38448586
GWAS1013947_H GCST90315125 ICOSLG/PDCD1LG2 protein level ratio 43,509 European ancestry individuals ? NR 1E-1038 1038 rs10935473 0.462014 blood protein measurement (EFO:0007937)
 PMID:38412862
GWAS1014397_H GCST90315205 ITGA5/SELE protein level ratio 43,509 European ancestry individuals ? NR 6E-47 46.222 rs10935473 0.0976378 blood protein measurement (EFO:0007937)
 PMID:38412862
GWAS1014939_H GCST90012000 E-selectin levels 21,758 European ancestry individuals T 0.45 6E-23 22.222 rs10935473 0.0799 e-selectin measurement (EFO:0004575)
 PMID:33067605
GWAS1016432_H GCST90315546 NOTCH1/TIE1 protein level ratio 43,509 European ancestry individuals ? NR 5E-258 257.302 rs10935473 0.234281 blood protein measurement (EFO:0007937)
 PMID:38412862
GWAS1016647_H GCST90315726 PRCP/SELE protein level ratio 43,509 European ancestry individuals ? NR 2E-57 56.699 rs10935473 0.109492 blood protein measurement (EFO:0007937)
 PMID:38412862
GWAS1019244_H GCST90314680 EPHB4/ICAM2 protein level ratio 43,509 European ancestry individuals ? NR 3E-2779 2778.523 rs10935473 0.718606 blood protein measurement (EFO:0007937)
 PMID:38412862
GWAS1019556_H GCST90314646 ENG/ICAM2 protein level ratio 43,509 European ancestry individuals ? NR 2E-3465 3464.699 rs10935473 0.793228 blood protein measurement (EFO:0007937)
 PMID:38412862
GWAS1031104_H GCST009894 Soluble gp130 levels 3,439 European ancestry individuals T NR 0.000009 5.046 rs10935473 0.014 soluble gp130 measurement (EFO:0010696)
 PMID:31932740
GWAS1039874_H GCST90161351 Vascular endothelial growth factor receptor 3 levels 2,935 Qatari ancestry individuals T 0.410221 2E-155 154.699 rs10935473 0.717464 vascular endothelial growth factor receptor 3 measurement (EFO:0008315)
 PMID:36168886
GWAS1047429_H GCST90161585 Programmed cell death 1 ligand 2 levels 2,935 Qatari ancestry individuals T 0.410221 5E-12 11.302 rs10935473 0.188579 programmed cell death 1 ligand 2 measurement (EFO:0008268)
 PMID:36168886
Database Acc Id Source(s)
GWAS Catalog GCST90302081 GWAS Catalog

RGD Curation Notes
Note Type Note Reference