GWAS683373_H QTL Report (Homo sapiens) - Rat Genome Database

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QTL Registration

QTL: GWAS683373_H (total cholesterol measurement QTL GWAS683373 (human)) Homo sapiens

Symbol: GWAS683373_H
Name: total cholesterol measurement QTL GWAS683373 (human)
RGD ID: 407034397
Trait: total cholesterol measurement
Measurement Type: blood total cholesterol level   (CMO:0000051)    
LOD Score: Not Available
P Value: 9.0E-13
Variance: Not Available
Position
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh386160,146,896 - 160,146,897RGD_MAPPER_PIPELINEGRCh38
GRCh376160,567,928 - 160,567,929RGD_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)
GWAS683373_HHumanblood total cholesterol level  IAGPrs3798167405850206Based on the EFO term IDGWAS_CATALOGPMID:36764567

Experimental Factor Annotations    Click to see Annotation Detail View
Object SymbolSpeciesTermQualifierEvidenceWithReferenceNotesSourceOriginal Reference(s)
GWAS683373_HHumantotal cholesterol measurement  IAGPrs3798167405850206 GWAS_CATALOGPMID:36764567
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
732626SLC22A1solute carrier family 22 member 16160121815160158718Human

Position Markers

Peak: (rs3798167)
Human AssemblyChrPosition (strand)Source
GRCh386160,146,896 - 160,146,897RGD_MAPPER_PIPELINE


QTLs in Region (GRCh38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
407033410GWAS682386_Hcholesteryl ester measurement QTL GWAS682386 (human)2e-14blood lipid amount (VT:0003949)6160146896160146897Human
407309542GWAS958518_Hlow density lipoprotein cholesterol measurement QTL GWAS958518 (human)2e-12low density lipoprotein cholesterol measurementblood low density lipoprotein cholesterol level (CMO:0000053)6160146896160146897Human
407041760GWAS690736_Hconcentration of large LDL particles measurement QTL GWAS690736 (human)8e-12concentration of large LDL particles measurement6160146896160146897Human
407068641GWAS717617_H1-stearoyl-2-docosapentaenoyl-GPC (18:0/22:5n6) measurement QTL GWAS717617 (human)0.00000041-stearoyl-2-docosapentaenoyl-GPC (18:0/22:5n6) measurement6160146896160146897Human
407112294GWAS761270_Hapolipoprotein B to apolipoprotein A1 ratio QTL GWAS761270 (human)7e-12apolipoprotein B to apolipoprotein A1 ratio 6160146896160146897Human
407030406GWAS679382_Hfree cholesterol in very small VLDL measurement QTL GWAS679382 (human)7e-15free cholesterol in very small VLDL measurement 6160146896160146897Human
407041734GWAS690710_Hcholesteryl ester measurement QTL GWAS690710 (human)3e-13blood lipid amount (VT:0003949)6160146896160146897Human
407032324GWAS681300_Hlow density lipoprotein cholesterol measurement QTL GWAS681300 (human)4e-11phospholipids:total lipids ratioblood low density lipoprotein cholesterol level (CMO:0000053)6160146896160146897Human
407033643GWAS682619_Hphospholipids in LDL measurement QTL GWAS682619 (human)3e-11phospholipids in LDL measurement blood low density lipoprotein phospholipid level (CMO:0001568)6160146896160146897Human
407289290GWAS938266_Hfree cholesterol measurement, low density lipoprotein cholesterol measurement QTL GWAS938266 (human)2e-10free cholesterol measurement, low density lipoprotein cholesterol measurementblood low density lipoprotein cholesterol level (CMO:0000053)6160146896160146897Human
407189450GWAS838426_Hfree cholesterol measurement, low density lipoprotein cholesterol measurement QTL GWAS838426 (human)3e-10free cholesterol measurement, low density lipoprotein cholesterol measurementblood low density lipoprotein cholesterol level (CMO:0000053)6160146896160146897Human
407029330GWAS678306_Hlow density lipoprotein cholesterol measurement QTL GWAS678306 (human)6e-13low density lipoprotein cholesterol measurement, phospholipid measurementblood low density lipoprotein cholesterol level (CMO:0000053)6160146896160146897Human
407323862GWAS972838_Hlow density lipoprotein cholesterol measurement QTL GWAS972838 (human)5e-10low density lipoprotein cholesterol measurementblood low density lipoprotein cholesterol level (CMO:0000053)6160146896160146897Human
407119446GWAS768422_Hphospholipids in IDL measurement QTL GWAS768422 (human)7e-13phospholipids in IDL measurementblood intermediate density lipoprotein phospholipid level (CMO:0001574)6160146896160146897Human
407030710GWAS679686_Hintermediate density lipoprotein measurement QTL GWAS679686 (human)3e-14blood lipid amount (VT:0003949)blood very low density lipoprotein cholesterol level (CMO:0000648)6160146896160146897Human
1643404BMD3_HBone mineral density QTL 3 (human)2.420.0005Bone mineral density6157563614170805979Human
407114333GWAS763309_Hapolipoprotein B measurement QTL GWAS763309 (human)7e-14apolipoprotein B measurementblood apoliprotein B level (CMO:0000522)6160146896160146897Human
407031512GWAS680488_Htotal lipids in IDL QTL GWAS680488 (human)4e-12total lipids in IDL6160146896160146897Human
407188127GWAS837103_Hlow density lipoprotein cholesterol measurement, phospholipid measurement QTL GWAS837103 (human)3e-12lipid measurement, intermediate density lipoprotein measurementblood intermediate density lipoprotein cholesterol level (CMO:0001562)6160146896160146897Human
407292060GWAS941036_Hglomerular filtration rate QTL GWAS941036 (human)2e-49glomerular filtration rateglomerular filtration rate (CMO:0000490)6160146896160146897Human
1643367BW323_HBody weight QTL 323 (human)2.420.0005Body fat amount6157563614170805979Human
407115898GWAS764874_Hcholesteryl ester measurement QTL GWAS764874 (human)6e-11blood lipid amount (VT:0003949)6160146896160146897Human
407034397GWAS683373_Htotal cholesterol measurement QTL GWAS683373 (human)9e-13total cholesterol measurementblood total cholesterol level (CMO:0000051)6160146896160146897Human


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
GWAS678306_H GCST90269526 Concentration of LDL particles (UKB data field 23429) 88,329 European ancestry individuals T 0.199346 6E-13 12.222 rs3798167 0.0431042 low density lipoprotein cholesterol measurement (EFO:0004611)
 PMID:36764567
GWAS679382_H GCST90269618 Free cholesterol in very small VLDL (UKB data field 23521) 88,329 European ancestry individuals T 0.199346 7E-15 14.155 rs3798167 0.0455256 free cholesterol in very small VLDL measurement (EFO:0022275)
 PMID:36764567
GWAS679686_H GCST90269620 Concentration of IDL particles (UKB data field 23523) 88,329 European ancestry individuals T 0.199346 3E-14 13.523 rs3798167 0.0450212 intermediate density lipoprotein measurement (EFO:0008595)
 PMID:36764567
None Available GCST90269616 Cholesterol in very small VLDL (UKB data field 23519) 88,329 European ancestry individuals T 0.199346 7E-15 14.155 rs3798167 0.0450862 cholesterol in very small VLDL measurement (EFO:0022231)
 PMID:36764567
GWAS680488_H GCST90269621 Total lipids in IDL (UKB data field 23524) 88,329 European ancestry individuals T 0.199346 4E-12 11.398 rs3798167 0.0400874 total lipids in IDL (EFO:0022161)
 PMID:36764567
GWAS681300_H GCST90269501 Clinical LDL cholesterol levels (UKB data field 23404) 88,329 European ancestry individuals T 0.199346 4E-11 10.398 rs3798167 0.0392793 low density lipoprotein cholesterol measurement (EFO:0004611)
 PMID:36764567
GWAS682386_H GCST90269617 Cholesteryl esters in very small VLDL (UKB data field 23520) 88,329 European ancestry individuals T 0.199346 2E-14 13.699 rs3798167 0.0442114 cholesteryl ester measurement (EFO:0010351)
 PMID:36764567
GWAS682619_H GCST90269510 Phospholipids in LDL (UKB data field 23413) 88,329 European ancestry individuals T 0.199346 3E-11 10.523 rs3798167 0.0395513 phospholipids in LDL measurement (EFO:0022294)
 PMID:36764567
None Available GCST90269611 Free cholesterol in small VLDL (UKB data field 23514) 88,329 European ancestry individuals T 0.199346 3E-14 13.523 rs3798167 0.0455285 free cholesterol in small VLDL measurement (EFO:0022272)
 PMID:36764567
GWAS683373_H GCST90269498 Total cholesterol minus HDL-C levels (UKB data field 23401) 88,329 European ancestry individuals T 0.199346 9E-13 12.046 rs3798167 0.0424619 total cholesterol measurement (EFO:0004574)
 PMID:36764567
None Available GCST90269499 Remnant cholesterol (non-HDL, non-LDL -cholesterol) levels (UKB data field 23402) 88,329 European ancestry individuals T 0.199346 3E-14 13.523 rs3798167 0.0451654 remnant cholesterol measurement (EFO:0010815)
 PMID:36764567
None Available GCST90269602 Cholesterol in medium VLDL (UKB data field 23505) 88,329 European ancestry individuals T 0.199346 3E-14 13.523 rs3798167 0.0452061 cholesterol in medium VLDL measurement (EFO:0022225)
 PMID:36764567
None Available GCST90269629 Phospholipids in large LDL (UKB data field 23532) 88,329 European ancestry individuals T 0.199346 3E-11 10.523 rs3798167 0.039351 phospholipids in large LDL measurement (EFO:0022174)
 PMID:36764567
GWAS690710_H GCST90269603 Cholesteryl esters in medium VLDL (UKB data field 23506) 88,329 European ancestry individuals T 0.199346 3E-13 12.523 rs3798167 0.0431428 cholesteryl ester measurement (EFO:0010351)
 PMID:36764567
GWAS690736_H GCST90269627 Concentration of large LDL particles (UKB data field 23530) 88,329 European ancestry individuals T 0.199346 8E-12 11.097 rs3798167 0.040819 concentration of large LDL particles measurement (EFO:0022160)
 PMID:36764567
GWAS717617_H GCST90244968 1-stearoyl-2-docosapentaenoyl-GPC (18:0/22:5n6) levels 14,296 European ancestry individuals T 0.2023 4E-7 6.398 rs3798167 0.065422095 1-stearoyl-2-docosapentaenoyl-GPC (18:0/22:5n6) measurement (EFO:0800456)
 PMID:36357675
None Available GCST90269681 Phospholipids to total lipids in very large VLDL percentage (UKB data field 23584) 87,620 European ancestry individuals T 0.199325 4E-11 10.398 rs3798167 0.039442 phospholipids:total lipids ratio (EFO:0020946)
 PMID:36764567
GWAS761270_H GCST90269538 Apolipoprotein B to apolipoprotein A1 ratio (UKB data field 23441) 88,329 European ancestry individuals T 0.199346 7E-12 11.155 rs3798167 0.0404495 apolipoprotein B to apolipoprotein A1 ratio (EFO:0021897)
 PMID:36764567
GWAS763309_H GCST90269536 Apolipoprotein B levels (UKB data field 23439) 88,329 European ancestry individuals T 0.199346 7E-14 13.155 rs3798167 0.044711 apolipoprotein B measurement (EFO:0004615)
 PMID:36764567
GWAS764874_H GCST90269624 Cholesteryl esters in IDL (UKB data field 23527) 88,329 European ancestry individuals T 0.199346 6E-11 10.222 rs3798167 0.0378708 cholesteryl ester measurement (EFO:0010351)
 PMID:36764567
None Available GCST90269623 Cholesterol in IDL (UKB data field 23526) 88,329 European ancestry individuals T 0.199346 6E-11 10.222 rs3798167 0.0378342 cholesterol in IDL measurement (EFO:0021899)
 PMID:36764567
GWAS768422_H GCST90269622 Phospholipids in IDL (UKB data field 23525) 88,329 European ancestry individuals T 0.199346 7E-13 12.155 rs3798167 0.0415185 phospholipids in IDL measurement (EFO:0022164)
 PMID:36764567
GWAS837103_H GCST90092864 Phospholipid levels in large LDL 115,082 European ancestry individuals G 0.799907 3E-12 11.523 rs3798167 0.0360353 low density lipoprotein cholesterol measurement (EFO:0004611)
phospholipid measurement (EFO:0004639)
 PMID:35213538
GWAS838426_H GCST90092885 Free cholesterol levels in LDL 115,082 European ancestry individuals G 0.799907 3E-10 9.523 rs3798167 0.0324745 free cholesterol measurement (EFO:0008591)
low density lipoprotein cholesterol measurement (EFO:0004611)
 PMID:35213538
None Available GCST90092888 Phospholipid levels in LDL 115,082 European ancestry individuals G 0.799907 6E-13 12.222 rs3798167 0.037289 low density lipoprotein cholesterol measurement (EFO:0004611)
phospholipid measurement (EFO:0004639)
 PMID:35213538
None Available GCST90092837 Total lipid levels in IDL 115,082 European ancestry individuals G 0.799907 3E-12 11.523 rs3798167 0.0351621 lipid measurement (EFO:0004529)
intermediate density lipoprotein measurement (EFO:0008595)
 PMID:35213538
None Available GCST90092918 Cholesteryl ester levels in medium VLDL 115,082 European ancestry individuals G 0.799907 3E-14 13.523 rs3798167 0.0391688 cholesteryl ester measurement (EFO:0010351)
very low density lipoprotein cholesterol measurement (EFO:0008317)
 PMID:35213538
GWAS938266_H GCST90092908 Free cholesterol levels in medium LDL 115,082 European ancestry individuals G 0.799907 2E-10 9.699 rs3798167 0.0329764 free cholesterol measurement (EFO:0008591)
low density lipoprotein cholesterol measurement (EFO:0004611)
 PMID:35213538
GWAS941036_H GCST90103634 Estimated glomerular filtration rate (creatinine) 1,004,040 European ancestry individuals T 0.205 2E-49 48.699 rs3798167 0.00443876 glomerular filtration rate (EFO:0005208)
 PMID:34272381
GWAS958518_H GCST90092814 Clinical LDL cholesterol levels 115,082 European ancestry individuals G 0.799907 2E-12 11.699 rs3798167 0.0362236 low density lipoprotein cholesterol measurement (EFO:0004611)
 PMID:35213538
GWAS972838_H GCST90179148 Low-density lipoprotein levels (MTAG) 361,194 European ancestry individuals T NR 5E-10 9.302 rs3798167 0.01081 low density lipoprotein cholesterol measurement (EFO:0004611)
 PMID:36376304
None Available GCST90093030 Cholesteryl ester levels in very small VLDL 115,082 European ancestry individuals G 0.799907 3E-14 13.523 rs3798167 0.0379853 cholesteryl ester measurement (EFO:0010351)
very low density lipoprotein cholesterol measurement (EFO:0008317)
 PMID:35213538
Database Acc Id Source(s)
GWAS Catalog GCST90269498 GWAS Catalog

RGD Curation Notes
Note Type Note Reference