GWAS906816_H QTL Report (Homo sapiens) - Rat Genome Database

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QTL Registration

QTL: GWAS906816_H (cholesteryl ester measurement, very low density lipoprotein cholesterol measurement QTL GWAS906816 (human)) Homo sapiens

Symbol: GWAS906816_H
Name: cholesteryl ester measurement, very low density lipoprotein cholesterol measurement QTL GWAS906816 (human)
RGD ID: 407257840
Trait: blood lipid amount   (VT:0003949)    
Measurement Type: blood intermediate density lipoprotein cholesterol level   (CMO:0001562)    
blood very low density lipoprotein cholesterol level   (CMO:0000648)    
LOD Score: Not Available
P Value: 9.0E-9
Variance: Not Available
Position
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh38552,810,444 - 52,810,445RGD_MAPPER_PIPELINEGRCh38
GRCh37552,106,278 - 52,106,279RGD_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)
GWAS906816_HHumanblood intermediate density lipoprotein cholesterol level  IAGPrs1499279405850206Based on the EFO term IDGWAS_CATALOGPMID:35213538
GWAS906816_HHumanblood very low density lipoprotein cholesterol level  IAGPrs1499279405850206Based on the EFO term IDGWAS_CATALOGPMID:35213538

Vertebrate Trait
Object SymbolSpeciesTermQualifierEvidenceWithReferenceNotesSourceOriginal Reference(s)
GWAS906816_HHumanblood lipid amount  IAGPrs1499279405850206Based on the EFO term IDGWAS_CATALOGPMID:35213538

Experimental Factor 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
69006ITGA1integrin subunit alpha 155278791652959209Human

Position Markers

Peak: (rs1499279)
Human AssemblyChrPosition (strand)Source
GRCh38552,810,444 - 52,810,445RGD_MAPPER_PIPELINE


QTLs in Region (GRCh38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
407192321GWAS841297_Hlow density lipoprotein cholesterol measurement, phospholipid measurement QTL GWAS841297 (human)6e-12low density lipoprotein cholesterol measurement, phospholipid measurementblood low density lipoprotein cholesterol level (CMO:0000053)55281044452810445Human
407038727GWAS687703_Hphospholipids in large LDL measurement QTL GWAS687703 (human)5e-11low density lipoprotein cholesterol measurementblood lipid measurement (CMO:0000050)55281044452810445Human
407257347GWAS906323_Hlow density lipoprotein cholesterol measurement, phospholipid measurement QTL GWAS906323 (human)2e-12low density lipoprotein cholesterol measurement, phospholipid measurementblood low density lipoprotein cholesterol level (CMO:0000053)55281044452810445Human
407238350GWAS887326_Hlipid measurement, intermediate density lipoprotein measurement QTL GWAS887326 (human)7e-09free cholesterol measurement, intermediate density lipoprotein measurementblood cholesterol level (CMO:0002280)55281044452810445Human
407039118GWAS688094_Htotal lipids in LDL measurement QTL GWAS688094 (human)4e-10total lipids in LDL measurement 55281044452810445Human
407041619GWAS690595_Htotal lipids in medium LDL QTL GWAS690595 (human)1e-09blood lipid amount (VT:0003949)blood low density lipoprotein cholesterol level (CMO:0000053)55281044452810445Human
407194961GWAS843937_Hlow density lipoprotein cholesterol measurement QTL GWAS843937 (human)2e-09low density lipoprotein cholesterol measurementblood low density lipoprotein cholesterol level (CMO:0000053)55281044452810445Human
407326942GWAS975918_Hlow density lipoprotein cholesterol measurement, phospholipid measurement QTL GWAS975918 (human)7e-13low density lipoprotein cholesterol measurement, phospholipid measurementblood low density lipoprotein cholesterol level (CMO:0000053)55281044452810445Human
407257318GWAS906294_Htotal cholesterol measurement, low density lipoprotein cholesterol measurement QTL GWAS906294 (human)6e-11total cholesterol measurement, low density lipoprotein cholesterol measurementblood low density lipoprotein cholesterol level (CMO:0000053)55281044452810445Human
407033635GWAS682611_Hphospholipids in LDL measurement QTL GWAS682611 (human)2e-11phospholipids in LDL measurement 55281044452810445Human
407309541GWAS958517_Hlow density lipoprotein cholesterol measurement QTL GWAS958517 (human)1e-11low density lipoprotein cholesterol measurementblood low density lipoprotein cholesterol level (CMO:0000053)55281044452810445Human
407326433GWAS975409_Hcholesteryl ester measurement, low density lipoprotein cholesterol measurement QTL GWAS975409 (human)1e-08blood lipid amount (VT:0003949)blood low density lipoprotein cholesterol level (CMO:0000053)55281044452810445Human
407237154GWAS886130_Hphospholipid measurement, intermediate density lipoprotein measurement QTL GWAS886130 (human)3e-08free cholesterol measurement, very low density lipoprotein cholesterol measurementblood very low density lipoprotein cholesterol level (CMO:0000648)55281044452810445Human
407029739GWAS678715_Hlow density lipoprotein cholesterol measurement QTL GWAS678715 (human)6e-10low density lipoprotein cholesterol measurementblood low density lipoprotein cholesterol level (CMO:0000053)55281044452810445Human
407309037GWAS958013_Hapolipoprotein B measurement QTL GWAS958013 (human)8e-09apolipoprotein B measurementblood apoliprotein B level (CMO:0000522)55281044452810445Human
407040047GWAS689023_Hphospholipids in medium LDL measurement QTL GWAS689023 (human)3e-11low density lipoprotein cholesterol measurement, lipid measurementblood lipid measurement (CMO:0000050)55281044452810445Human
407165289GWAS814265_Halkaline phosphatase measurement QTL GWAS814265 (human)3e-21alkaline phosphatase measurementblood alkaline phosphatase activity level (CMO:0000576)55281044452810445Human
407190261GWAS839237_Hcholesteryl ester measurement, low density lipoprotein cholesterol measurement QTL GWAS839237 (human)2e-10blood lipid amount (VT:0003949)blood low density lipoprotein cholesterol level (CMO:0000053)55281044452810445Human
407257840GWAS906816_Hcholesteryl ester measurement, very low density lipoprotein cholesterol measurement QTL GWAS906816 (human)9e-09blood lipid amount (VT:0003949)blood intermediate density lipoprotein cholesterol level (CMO:0001562)55281044452810445Human
407160764GWAS809740_Herythrocyte measurement QTL GWAS809740 (human)2e-16erythrocyte measurementred blood cell measurement (CMO:0001356)55281044452810445Human
407253758GWAS902734_Htotal cholesterol measurement QTL GWAS902734 (human)4e-09total cholesterol measurementblood total cholesterol level (CMO:0000051)55281044452810445Human
407281407GWAS930383_Halkaline phosphatase measurement QTL GWAS930383 (human)3e-14alkaline phosphatase measurementblood alkaline phosphatase activity level (CMO:0000576)55281044452810445Human
407215353GWAS864329_Hlow density lipoprotein cholesterol measurement, phospholipid measurement QTL GWAS864329 (human)1e-12low density lipoprotein cholesterol measurement, phospholipid measurementblood low density lipoprotein cholesterol level (CMO:0000053)55281044452810445Human
407315706GWAS964682_Hlow density lipoprotein cholesterol measurement, lipid measurement QTL GWAS964682 (human)1e-10low density lipoprotein cholesterol measurement, lipid measurementblood total cholesterol level (CMO:0000051)55281044452810445Human
407216507GWAS865483_Hlow density lipoprotein cholesterol measurement QTL GWAS865483 (human)6e-09total cholesterol measurement, intermediate density lipoprotein measurementblood intermediate density lipoprotein cholesterol level (CMO:0001562)55281044452810445Human


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
GWAS678715_H GCST90269502 LDL cholesterol levels (UKB data field 23405) 88,329 European ancestry individuals G 0.0416723 6E-10 9.222 rs1499279 0.0732946 low density lipoprotein cholesterol measurement (EFO:0004611)
 PMID:36764567
GWAS682611_H GCST90269510 Phospholipids in LDL (UKB data field 23413) 88,329 European ancestry individuals G 0.0416723 2E-11 10.699 rs1499279 0.0797426 phospholipids in LDL measurement (EFO:0022294)
 PMID:36764567
GWAS687703_H GCST90269629 Phospholipids in large LDL (UKB data field 23532) 88,329 European ancestry individuals G 0.0416723 5E-11 10.302 rs1499279 0.0775519 phospholipids in large LDL measurement (EFO:0022174)
 PMID:36764567
GWAS688094_H GCST90269522 Total lipids in LDL (UKB data field 23425) 88,329 European ancestry individuals G 0.0416723 4E-10 9.398 rs1499279 0.074088 total lipids in LDL measurement (EFO:0022308)
 PMID:36764567
GWAS689023_H GCST90269636 Phospholipids in medium LDL (UKB data field 23539) 88,329 European ancestry individuals G 0.0416723 3E-11 10.523 rs1499279 0.0789781 phospholipids in medium LDL measurement (EFO:0022183)
 PMID:36764567
GWAS690595_H GCST90269635 Total lipids in medium LDL (UKB data field 23538) 88,329 European ancestry individuals G 0.0416723 1E-9 9 rs1499279 0.0726635 total lipids in medium LDL (EFO:0022180)
 PMID:36764567
GWAS809740_H GCST90281221 Reticulocyte production index 39,566 European ancestry individuals G 0.0429 2E-16 15.699 rs1499279 0.143443 erythrocyte measurement (EFO:0005047)
 PMID:37596262
GWAS814265_H GCST90013406 Liver enzyme levels (alkaline phosphatase) 437,438 European ancestry individuals T 0.958844 3E-21 20.523 rs1499279 0.00526459 alkaline phosphatase measurement (EFO:0004533)
 PMID:33972514
None Available GCST90092862 Total lipid levels in large LDL 115,082 European ancestry individuals T 0.958377 5E-11 10.302 rs1499279 0.0677024 low density lipoprotein cholesterol measurement (EFO:0004611)
lipid measurement (EFO:0004529)
 PMID:35213538
GWAS839237_H GCST90092884 Cholesteryl ester levels in LDL 115,082 European ancestry individuals T 0.958377 2E-10 9.699 rs1499279 0.0660717 cholesteryl ester measurement (EFO:0010351)
low density lipoprotein cholesterol measurement (EFO:0004611)
 PMID:35213538
GWAS841297_H GCST90092864 Phospholipid levels in large LDL 115,082 European ancestry individuals T 0.958377 6E-12 11.222 rs1499279 0.0708201 low density lipoprotein cholesterol measurement (EFO:0004611)
phospholipid measurement (EFO:0004639)
 PMID:35213538
GWAS843937_H GCST90092863 Concentration of large LDL particles 115,082 European ancestry individuals T 0.958377 2E-9 8.699 rs1499279 0.0625401 low density lipoprotein cholesterol measurement (EFO:0004611)
 PMID:35213538
None Available GCST90092886 Total lipid levels in LDL 115,082 European ancestry individuals T 0.958377 3E-11 10.523 rs1499279 0.068823 low density lipoprotein cholesterol measurement (EFO:0004611)
lipid measurement (EFO:0004529)
 PMID:35213538
GWAS864329_H GCST90092888 Phospholipid levels in LDL 115,082 European ancestry individuals T 0.958377 1E-12 12 rs1499279 0.0734172 low density lipoprotein cholesterol measurement (EFO:0004611)
phospholipid measurement (EFO:0004639)
 PMID:35213538
GWAS865483_H GCST90092887 Concentration of LDL particles 115,082 European ancestry individuals T 0.958377 6E-9 8.222 rs1499279 0.0604562 low density lipoprotein cholesterol measurement (EFO:0004611)
 PMID:35213538
None Available GCST90092838 Concentration of IDL particles 115,082 European ancestry individuals T 0.958377 1E-9 9 rs1499279 0.062436 intermediate density lipoprotein measurement (EFO:0008595)
 PMID:35213538
GWAS886130_H GCST90092839 Phospholipid levels in IDL 115,082 European ancestry individuals T 0.958377 3E-8 7.523 rs1499279 0.0553027 phospholipid measurement (EFO:0004639)
intermediate density lipoprotein measurement (EFO:0008595)
 PMID:35213538
GWAS887326_H GCST90092837 Total lipid levels in IDL 115,082 European ancestry individuals T 0.958377 7E-9 8.155 rs1499279 0.058007 lipid measurement (EFO:0004529)
intermediate density lipoprotein measurement (EFO:0008595)
 PMID:35213538
None Available GCST90092835 Free cholesterol levels in IDL 115,082 European ancestry individuals T 0.958377 7E-9 8.155 rs1499279 0.0582177 free cholesterol measurement (EFO:0008591)
intermediate density lipoprotein measurement (EFO:0008595)
 PMID:35213538
GWAS902734_H GCST90092930 Total cholesterol minus HDL-C levels 115,082 European ancestry individuals T 0.958377 4E-9 8.398 rs1499279 0.0609557 total cholesterol measurement (EFO:0004574)
 PMID:35213538
None Available GCST90092910 Total lipid levels in medium LDL 115,082 European ancestry individuals T 0.958377 5E-11 10.302 rs1499279 0.0683986 low density lipoprotein cholesterol measurement (EFO:0004611)
lipid measurement (EFO:0004529)
 PMID:35213538
None Available GCST90092906 Cholesteryl ester levels in medium LDL 115,082 European ancestry individuals T 0.958377 1E-9 9 rs1499279 0.0633792 cholesteryl ester measurement (EFO:0010351)
low density lipoprotein cholesterol measurement (EFO:0004611)
 PMID:35213538
GWAS906294_H GCST90092904 Cholesterol levels in medium LDL 115,082 European ancestry individuals T 0.958377 6E-11 10.222 rs1499279 0.0680304 total cholesterol measurement (EFO:0004574)
low density lipoprotein cholesterol measurement (EFO:0004611)
 PMID:35213538
GWAS906323_H GCST90092912 Phospholipid levels in medium LDL 115,082 European ancestry individuals T 0.958377 2E-12 11.699 rs1499279 0.0735208 low density lipoprotein cholesterol measurement (EFO:0004611)
phospholipid measurement (EFO:0004639)
 PMID:35213538
GWAS906816_H GCST90092918 Cholesteryl ester levels in medium VLDL 115,082 European ancestry individuals T 0.958377 9E-9 8.046 rs1499279 0.0592177 cholesteryl ester measurement (EFO:0010351)
very low density lipoprotein cholesterol measurement (EFO:0008317)
 PMID:35213538
None Available GCST90092831 Cholesterol levels in IDL 115,082 European ancestry individuals T 0.958377 6E-9 8.222 rs1499279 0.0581984 total cholesterol measurement (EFO:0004574)
intermediate density lipoprotein measurement (EFO:0008595)
 PMID:35213538
None Available GCST90092833 Cholesteryl ester levels in IDL 115,082 European ancestry individuals T 0.958377 9E-9 8.046 rs1499279 0.0576939 cholesteryl ester measurement (EFO:0010351)
intermediate density lipoprotein measurement (EFO:0008595)
 PMID:35213538
GWAS930383_H GCST90018942 Serum alkaline phosphatase levels 344,292 European ancestry individuals, 118,886 East Asian ancestry individuals G NR 3E-14 13.523 rs1499279 0.0445 alkaline phosphatase measurement (EFO:0004533)
 PMID:34594039
None Available GCST90092883 LDL cholesterol levels 115,082 European ancestry individuals T 0.958377 5E-11 10.302 rs1499279 0.068024 low density lipoprotein cholesterol measurement (EFO:0004611)
 PMID:35213538
GWAS958013_H GCST90092809 Apolipoprotein B levels 115,082 European ancestry individuals T 0.958377 8E-9 8.097 rs1499279 0.0596608 apolipoprotein B measurement (EFO:0004615)
 PMID:35213538
GWAS958517_H GCST90092814 Clinical LDL cholesterol levels 115,082 European ancestry individuals T 0.958377 1E-11 11 rs1499279 0.0702165 low density lipoprotein cholesterol measurement (EFO:0004611)
 PMID:35213538
None Available GCST90092972 Free cholesterol levels in small VLDL 115,082 European ancestry individuals T 0.958377 3E-8 7.523 rs1499279 0.0573084 free cholesterol measurement (EFO:0008591)
very low density lipoprotein cholesterol measurement (EFO:0008317)
 PMID:35213538
GWAS964682_H GCST90092962 Total lipid levels in small LDL 115,082 European ancestry individuals T 0.958377 1E-10 10 rs1499279 0.0668698 low density lipoprotein cholesterol measurement (EFO:0004611)
lipid measurement (EFO:0004529)
 PMID:35213538
None Available GCST90092956 Cholesterol levels in small LDL 115,082 European ancestry individuals T 0.958377 1E-10 10 rs1499279 0.0668125 total cholesterol measurement (EFO:0004574)
low density lipoprotein cholesterol measurement (EFO:0004611)
 PMID:35213538
GWAS975409_H GCST90092958 Cholesteryl ester levels in small LDL 115,082 European ancestry individuals T 0.958377 1E-8 8 rs1499279 0.0590431 cholesteryl ester measurement (EFO:0010351)
low density lipoprotein cholesterol measurement (EFO:0004611)
 PMID:35213538
GWAS975918_H GCST90092964 Phospholipid levels in small LDL 115,082 European ancestry individuals T 0.958377 7E-13 12.155 rs1499279 0.0742237 low density lipoprotein cholesterol measurement (EFO:0004611)
phospholipid measurement (EFO:0004639)
 PMID:35213538
Database Acc Id Source(s)
GWAS Catalog GCST90092833 GWAS Catalog
  GCST90092918 GWAS Catalog

RGD Curation Notes
Note Type Note Reference