GWAS904025_H QTL Report (Homo sapiens) - Rat Genome Database

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QTL: GWAS904025_H (free cholesterol measurement, low density lipoprotein cholesterol measurement QTL GWAS904025 (human)) Homo sapiens

Symbol: GWAS904025_H
Name: free cholesterol measurement, low density lipoprotein cholesterol measurement QTL GWAS904025 (human)
RGD ID: 407255049
Trait: free cholesterol measurement, low density lipoprotein cholesterol measurement
Measurement Type: blood cholesterol level   (CMO:0002280)    
blood low density lipoprotein cholesterol level   (CMO:0000053)    
blood total cholesterol level   (CMO:0000051)    
LOD Score: Not Available
P Value: 1.0E-14
Variance: Not Available
Position
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh381234,717,013 - 234,717,014RGD_MAPPER_PIPELINEGRCh38
GRCh371234,852,760 - 234,852,761RGD_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)
GWAS904025_HHumanblood cholesterol level  IAGPrs553427405850206Based on the EFO term IDGWAS_CATALOGPMID:35213538
GWAS904025_HHumanblood low density lipoprotein cholesterol level  IAGPrs553427405850206Based on the EFO term IDGWAS_CATALOGPMID:35213538
GWAS904025_HHumanblood total cholesterol level  IAGPrs553427405850206Based 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
151673793LOC124904556uncharacterized LOC1249045561234709357234717579Human

Position Markers

Peak: (rs553427)
Human AssemblyChrPosition (strand)Source
GRCh381234,717,013 - 234,717,014RGD_MAPPER_PIPELINE


QTLs in Region (GRCh38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
407319815GWAS968791_Hlow density lipoprotein cholesterol measurement QTL GWAS968791 (human)3e-135low density lipoprotein cholesterol measurementblood low density lipoprotein cholesterol level (CMO:0000053)1234717013234717014Human
407287950GWAS936926_Htotal cholesterol measurement, very low density lipoprotein cholesterol measurement QTL GWAS936926 (human)2e-13total cholesterol measurement, very low density lipoprotein cholesterol measurementblood very low density lipoprotein cholesterol level (CMO:0000648)1234717013234717014Human
407314574GWAS963550_Hfree cholesterol measurement, very low density lipoprotein cholesterol measurement QTL GWAS963550 (human)5e-13free cholesterol measurement, very low density lipoprotein cholesterol measurementblood very low density lipoprotein cholesterol level (CMO:0000648)1234717013234717014Human
407260812GWAS909788_Hcholesteryl ester measurement, low density lipoprotein cholesterol measurement QTL GWAS909788 (human)4e-13blood lipid amount (VT:0003949)blood low density lipoprotein cholesterol level (CMO:0000053)1234717013234717014Human
407294538GWAS943514_Hfree cholesterol measurement, very low density lipoprotein cholesterol measurement QTL GWAS943514 (human)8e-13free cholesterol measurement, very low density lipoprotein cholesterol measurementblood very low density lipoprotein cholesterol level (CMO:0000648)1234717013234717014Human
407185675GWAS834651_Hlow density lipoprotein cholesterol measurement QTL GWAS834651 (human)4e-15free cholesterol measurementblood cholesterol level (CMO:0002280)1234717013234717014Human
407328392GWAS977368_Hfree cholesterol measurement, low density lipoprotein cholesterol measurement QTL GWAS977368 (human)5e-14free cholesterol measurement, low density lipoprotein cholesterol measurementblood low density lipoprotein cholesterol level (CMO:0000053)1234717013234717014Human
407255049GWAS904025_Hfree cholesterol measurement, low density lipoprotein cholesterol measurement QTL GWAS904025 (human)1e-14esterified cholesterol measurementblood total cholesterol level (CMO:0000051)1234717013234717014Human
407194646GWAS843622_Hfree cholesterol measurement, low density lipoprotein cholesterol measurement QTL GWAS843622 (human)3e-15free cholesterol measurement, low density lipoprotein cholesterol measurementblood low density lipoprotein cholesterol level (CMO:0000053)1234717013234717014Human
407194385GWAS843361_Htotal cholesterol measurement, low density lipoprotein cholesterol measurement QTL GWAS843361 (human)4e-16total cholesterol measurement, low density lipoprotein cholesterol measurementblood low density lipoprotein cholesterol level (CMO:0000053)1234717013234717014Human
407035863GWAS684839_Hfree cholesterol in small LDL measurement QTL GWAS684839 (human)3e-11free cholesterol in small LDL measurement 1234717013234717014Human
407269905GWAS918881_Hcholesteryl ester measurement, intermediate density lipoprotein measurement QTL GWAS918881 (human)6e-11blood lipid amount (VT:0003949)blood intermediate density lipoprotein cholesterol level (CMO:0001562)1234717013234717014Human
407215324GWAS864300_Hlow density lipoprotein cholesterol measurement, lipid measurement QTL GWAS864300 (human)2e-15free cholesterol:total lipids ratio, high density lipoprotein cholesterol measurementblood high density lipoprotein cholesterol level (CMO:0000052)1234717013234717014Human
407190559GWAS839535_Hlow density lipoprotein cholesterol measurement QTL GWAS839535 (human)1e-10low density lipoprotein cholesterol measurementblood low density lipoprotein cholesterol level (CMO:0000053)1234717013234717014Human
407316059GWAS965035_Hcholesteryl ester measurement, low density lipoprotein cholesterol measurement QTL GWAS965035 (human)7e-14blood lipid amount (VT:0003949)blood low density lipoprotein cholesterol level (CMO:0000053)1234717013234717014Human
407215064GWAS864040_Hlow density lipoprotein cholesterol measurement, phospholipid measurement QTL GWAS864040 (human)2e-14total cholesterol measurementblood total cholesterol level (CMO:0000051)1234717013234717014Human
407187355GWAS836331_Hcholesteryl ester measurement, low density lipoprotein cholesterol measurement QTL GWAS836331 (human)3e-16blood lipid amount (VT:0003949)blood low density lipoprotein cholesterol level (CMO:0000053)1234717013234717014Human
407144612GWAS793588_Hlow density lipoprotein cholesterol measurement QTL GWAS793588 (human)1e-09low density lipoprotein cholesterol measurementblood low density lipoprotein cholesterol level (CMO:0000053)1234717013234717014Human
407309351GWAS958327_Htotal cholesterol measurement QTL GWAS958327 (human)6e-15total cholesterol measurementblood total cholesterol level (CMO:0000051)1234717013234717014Human
407256997GWAS905973_Hhigh density lipoprotein cholesterol measurement QTL GWAS905973 (human)6e-21high density lipoprotein cholesterol measurementblood high density lipoprotein cholesterol level (CMO:0000052)1234717013234717014Human
407115682GWAS764658_Hfree cholesterol in IDL measurement QTL GWAS764658 (human)6e-10free cholesterol in IDL measurementblood intermediate density lipoprotein cholesterol level (CMO:0001562)1234717013234717014Human
407242732GWAS891708_Hlipid measurement, intermediate density lipoprotein measurement QTL GWAS891708 (human)3e-12remnant cholesterol measurementblood intermediate density lipoprotein cholesterol level (CMO:0001562)1234717013234717014Human
407298157GWAS947133_Hhigh density lipoprotein cholesterol measurement QTL GWAS947133 (human)2e-29high density lipoprotein cholesterol measurementblood high density lipoprotein cholesterol level (CMO:0000052)1234717013234717014Human
407215337GWAS864313_Hlow density lipoprotein cholesterol measurement QTL GWAS864313 (human)5e-15low density lipoprotein cholesterol measurementblood low density lipoprotein cholesterol level (CMO:0000053)1234717013234717014Human
407284392GWAS933368_Halkaline phosphatase measurement QTL GWAS933368 (human)3e-14low density lipoprotein cholesterol measurementblood low density lipoprotein cholesterol level (CMO:0000053)1234717013234717014Human
407188724GWAS837700_Hlow density lipoprotein cholesterol measurement, lipid measurement QTL GWAS837700 (human)9e-16low density lipoprotein cholesterol measurement, lipid measurementblood lipid measurement (CMO:0000050)1234717013234717014Human
407327027GWAS976003_Hlipid measurement, lipoprotein measurement QTL GWAS976003 (human)2e-12lipid measurement, lipoprotein measurementblood lipoprotein measurement (CMO:0002690)1234717013234717014Human
407036660GWAS685636_Hphospholipids in small LDL measurement QTL GWAS685636 (human)6e-12phospholipids in small LDL measurement 1234717013234717014Human
407329712GWAS978688_Hlipoprotein measurement, phospholipid measurement QTL GWAS978688 (human)9e-10lipoprotein measurement, phospholipid measurementblood lipoprotein measurement (CMO:0002690)1234717013234717014Human
406993210GWAS642186_Htotal cholesterol measurement QTL GWAS642186 (human)7e-24total cholesterol measurementblood total cholesterol level (CMO:0000051)1234717013234717014Human
407192317GWAS841293_Hlow density lipoprotein cholesterol measurement, phospholipid measurement QTL GWAS841293 (human)6e-14apolipoprotein B measurementblood apoliprotein B level (CMO:0000522)1234717013234717014Human
407315518GWAS964494_Hlow density lipoprotein cholesterol measurement, lipid measurement QTL GWAS964494 (human)7e-15low density lipoprotein cholesterol measurement, lipid measurementblood lipid measurement (CMO:0000050)1234717013234717014Human
407257341GWAS906317_Hlow density lipoprotein cholesterol measurement, phospholipid measurement QTL GWAS906317 (human)1e-13low density lipoprotein cholesterol measurement, phospholipid measurementblood low density lipoprotein cholesterol level (CMO:0000053)1234717013234717014Human
407269563GWAS918539_Htotal cholesterol measurement, intermediate density lipoprotein measurement QTL GWAS918539 (human)2e-11total cholesterol measurement, intermediate density lipoprotein measurementblood intermediate density lipoprotein cholesterol level (CMO:0001562)1234717013234717014Human
407190011GWAS838987_Hcholesteryl ester measurement, low density lipoprotein cholesterol measurement QTL GWAS838987 (human)1e-15blood lipid amount (VT:0003949)blood low density lipoprotein cholesterol level (CMO:0000053)1234717013234717014Human


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
GWAS642186_H GCST011346 Total cholesterol levels 76,081 European ancestry individuals, 127,395 Japanese ancestry individuals ? NR 7E-24 23.155 rs553427 0.0377 total cholesterol measurement (EFO:0004574)
PMID:33339817
GWAS684839_H GCST90269646 Free cholesterol in small LDL (UKB data field 23549) 88,329 European ancestry individuals C 0.483055 3E-11 10.523 rs553427 0.031555 free cholesterol in small LDL measurement (EFO:0022271)
PMID:36764567
GWAS685636_H GCST90269643 Phospholipids in small LDL (UKB data field 23546) 88,329 European ancestry individuals C 0.483055 6E-12 11.222 rs553427 0.0326662 phospholipids in small LDL measurement (EFO:0022297)
PMID:36764567
GWAS764658_H GCST90269625 Free cholesterol in IDL (UKB data field 23528) 88,329 European ancestry individuals C 0.483055 6E-10 9.222 rs553427 0.0284959 free cholesterol in IDL measurement (EFO:0022181)
PMID:36764567
GWAS793588_H GCST006004 Low density lipoprotein cholesterol levels 72,866 Japanese ancestry individuals ? NR 1E-9 9 rs553427 0.03482 low density lipoprotein cholesterol measurement (EFO:0004611)
PMID:29403010
GWAS834651_H GCST90092863 Concentration of large LDL particles 115,082 European ancestry individuals C 0.482963 4E-15 14.398 rs553427 0.0323065 low density lipoprotein cholesterol measurement (EFO:0004611)
PMID:35213538
None Available GCST90092885 Free cholesterol levels in LDL 115,082 European ancestry individuals C 0.482963 4E-15 14.398 rs553427 0.0321631 free cholesterol measurement (EFO:0008591)
low density lipoprotein cholesterol measurement (EFO:0004611)
PMID:35213538
GWAS836331_H GCST90092858 Cholesteryl ester levels in large LDL 115,082 European ancestry individuals C 0.482963 3E-16 15.523 rs553427 0.0333905 cholesteryl ester measurement (EFO:0010351)
low density lipoprotein cholesterol measurement (EFO:0004611)
PMID:35213538
GWAS837700_H GCST90092862 Total lipid levels in large LDL 115,082 European ancestry individuals C 0.482963 9E-16 15.046 rs553427 0.032868 low density lipoprotein cholesterol measurement (EFO:0004611)
lipid measurement (EFO:0004529)
PMID:35213538
GWAS838987_H GCST90092884 Cholesteryl ester levels in LDL 115,082 European ancestry individuals C 0.482963 1E-15 15 rs553427 0.0328809 cholesteryl ester measurement (EFO:0010351)
low density lipoprotein cholesterol measurement (EFO:0004611)
PMID:35213538
GWAS839535_H GCST90018741 LDL cholesterol 72,866 East Asian ancestry individuals T 0.710205 1E-10 10 rs553427 0.0338519 low density lipoprotein cholesterol measurement (EFO:0004611)
PMID:34594039
GWAS841293_H GCST90092864 Phospholipid levels in large LDL 115,082 European ancestry individuals C 0.482963 6E-14 13.222 rs553427 0.0307558 low density lipoprotein cholesterol measurement (EFO:0004611)
phospholipid measurement (EFO:0004639)
PMID:35213538
GWAS843361_H GCST90092856 Cholesterol levels in large LDL 115,082 European ancestry individuals C 0.482963 4E-16 15.398 rs553427 0.0332394 total cholesterol measurement (EFO:0004574)
low density lipoprotein cholesterol measurement (EFO:0004611)
PMID:35213538
GWAS843622_H GCST90092860 Free cholesterol levels in large LDL 115,082 European ancestry individuals C 0.482963 3E-15 14.523 rs553427 0.0319903 free cholesterol measurement (EFO:0008591)
low density lipoprotein cholesterol measurement (EFO:0004611)
PMID:35213538
GWAS864040_H GCST90092888 Phospholipid levels in LDL 115,082 European ancestry individuals C 0.482963 2E-14 13.699 rs553427 0.0315166 low density lipoprotein cholesterol measurement (EFO:0004611)
phospholipid measurement (EFO:0004639)
PMID:35213538
GWAS864300_H GCST90092886 Total lipid levels in LDL 115,082 European ancestry individuals C 0.482963 2E-15 14.699 rs553427 0.0327483 low density lipoprotein cholesterol measurement (EFO:0004611)
lipid measurement (EFO:0004529)
PMID:35213538
GWAS864313_H GCST90092887 Concentration of LDL particles 115,082 European ancestry individuals C 0.482963 5E-15 14.302 rs553427 0.0322742 low density lipoprotein cholesterol measurement (EFO:0004611)
PMID:35213538
GWAS891708_H GCST90092837 Total lipid levels in IDL 115,082 European ancestry individuals C 0.482963 3E-12 11.523 rs553427 0.0278789 lipid measurement (EFO:0004529)
intermediate density lipoprotein measurement (EFO:0008595)
PMID:35213538
None Available GCST90092930 Total cholesterol minus HDL-C levels 115,082 European ancestry individuals C 0.482963 2E-14 13.699 rs553427 0.0313813 total cholesterol measurement (EFO:0004574)
PMID:35213538
None Available GCST90092910 Total lipid levels in medium LDL 115,082 European ancestry individuals C 0.482963 6E-14 13.222 rs553427 0.0310149 low density lipoprotein cholesterol measurement (EFO:0004611)
lipid measurement (EFO:0004529)
PMID:35213538
GWAS904025_H GCST90092908 Free cholesterol levels in medium LDL 115,082 European ancestry individuals C 0.482963 1E-14 14 rs553427 0.0318296 free cholesterol measurement (EFO:0008591)
low density lipoprotein cholesterol measurement (EFO:0004611)
PMID:35213538
GWAS905973_H GCST90239652 High density lipoprotein cholesterol levels 1,320,016 European ancestry individuals T 0.527256 6E-21 20.222 rs553427 0.0171565 high density lipoprotein cholesterol measurement (EFO:0004612)
PMID:34887591
GWAS906317_H GCST90092912 Phospholipid levels in medium LDL 115,082 European ancestry individuals C 0.482963 1E-13 13 rs553427 0.0306847 low density lipoprotein cholesterol measurement (EFO:0004611)
phospholipid measurement (EFO:0004639)
PMID:35213538
None Available GCST90092904 Cholesterol levels in medium LDL 115,082 European ancestry individuals C 0.482963 6E-14 13.222 rs553427 0.0310354 total cholesterol measurement (EFO:0004574)
low density lipoprotein cholesterol measurement (EFO:0004611)
PMID:35213538
GWAS909788_H GCST90092906 Cholesteryl ester levels in medium LDL 115,082 European ancestry individuals C 0.482963 4E-13 12.398 rs553427 0.0299671 cholesteryl ester measurement (EFO:0010351)
low density lipoprotein cholesterol measurement (EFO:0004611)
PMID:35213538
GWAS918539_H GCST90092831 Cholesterol levels in IDL 115,082 European ancestry individuals C 0.482963 2E-11 10.699 rs553427 0.0268913 total cholesterol measurement (EFO:0004574)
intermediate density lipoprotein measurement (EFO:0008595)
PMID:35213538
GWAS918881_H GCST90092833 Cholesteryl ester levels in IDL 115,082 European ancestry individuals C 0.482963 6E-11 10.222 rs553427 0.0260863 cholesteryl ester measurement (EFO:0010351)
intermediate density lipoprotein measurement (EFO:0008595)
PMID:35213538
GWAS933368_H GCST90018942 Serum alkaline phosphatase levels 344,292 European ancestry individuals, 118,886 East Asian ancestry individuals T NR 3E-14 13.523 rs553427 0.0155 alkaline phosphatase measurement (EFO:0004533)
PMID:34594039
GWAS936926_H GCST90092916 Cholesterol levels in medium VLDL 115,082 European ancestry individuals C 0.482963 2E-13 12.699 rs553427 0.0301972 total cholesterol measurement (EFO:0004574)
very low density lipoprotein cholesterol measurement (EFO:0008317)
PMID:35213538
GWAS943514_H GCST90092920 Free cholesterol levels in medium VLDL 115,082 European ancestry individuals C 0.482963 8E-13 12.097 rs553427 0.0295578 free cholesterol measurement (EFO:0008591)
very low density lipoprotein cholesterol measurement (EFO:0008317)
PMID:35213538
GWAS947133_H GCST90239649 High density lipoprotein cholesterol levels 40,963 South Asian ancestry individuals, 48,057 Hispanic individuals, 99,432 Admixed African or African ancestry individuals, 146,492 East Asian ancestry individuals, 1,320,016 European ancestry individuals ? NR 2E-29 28.699 rs553427 N/A high density lipoprotein cholesterol measurement (EFO:0004612)
PMID:34887591
None Available GCST90092883 LDL cholesterol levels 115,082 European ancestry individuals C 0.482963 1E-15 15 rs553427 0.0330153 low density lipoprotein cholesterol measurement (EFO:0004611)
PMID:35213538
GWAS958327_H GCST90092985 Total cholesterol levels 115,082 European ancestry individuals C 0.482963 6E-15 14.222 rs553427 0.0311849 total cholesterol measurement (EFO:0004574)
PMID:35213538
None Available GCST90092809 Apolipoprotein B levels 115,082 European ancestry individuals C 0.482963 6E-14 13.222 rs553427 0.0309179 apolipoprotein B measurement (EFO:0004615)
PMID:35213538
None Available GCST90092814 Clinical LDL cholesterol levels 115,082 European ancestry individuals C 0.482963 3E-14 13.523 rs553427 0.031181 low density lipoprotein cholesterol measurement (EFO:0004611)
PMID:35213538
None Available GCST90092988 Total free cholesterol levels 115,082 European ancestry individuals C 0.482963 4E-15 14.398 rs553427 0.0316618 free cholesterol measurement (EFO:0008591)
PMID:35213538
None Available GCST90092986 Total esterified cholesterol levels 115,082 European ancestry individuals C 0.482963 1E-14 14 rs553427 0.0307547 esterified cholesterol measurement (EFO:0008589)
PMID:35213538
GWAS963550_H GCST90092972 Free cholesterol levels in small VLDL 115,082 European ancestry individuals C 0.482963 5E-13 12.302 rs553427 0.02984 free cholesterol measurement (EFO:0008591)
very low density lipoprotein cholesterol measurement (EFO:0008317)
PMID:35213538
GWAS964494_H GCST90092962 Total lipid levels in small LDL 115,082 European ancestry individuals C 0.482963 7E-15 14.155 rs553427 0.0321215 low density lipoprotein cholesterol measurement (EFO:0004611)
lipid measurement (EFO:0004529)
PMID:35213538
GWAS965035_H GCST90092958 Cholesteryl ester levels in small LDL 115,082 European ancestry individuals C 0.482963 7E-14 13.155 rs553427 0.0309689 cholesteryl ester measurement (EFO:0010351)
low density lipoprotein cholesterol measurement (EFO:0004611)
PMID:35213538
None Available GCST90092956 Cholesterol levels in small LDL 115,082 European ancestry individuals C 0.482963 1E-14 14 rs553427 0.0318115 total cholesterol measurement (EFO:0004574)
low density lipoprotein cholesterol measurement (EFO:0004611)
PMID:35213538
GWAS968791_H GCST90239658 Low density lipoprotein cholesterol levels 1,320,016 European ancestry individuals T 0.526973 3E-135 134.523 rs553427 0.0403134 low density lipoprotein cholesterol measurement (EFO:0004611)
PMID:34887591
None Available GCST90092949 Free cholesterol to total lipids ratio in small HDL 115,082 European ancestry individuals C 0.482963 2E-15 14.699 rs553427 0.0310851 free cholesterol:total lipids ratio (EFO:0020945)
high density lipoprotein cholesterol measurement (EFO:0004612)
PMID:35213538
None Available GCST90092943 Remnant cholesterol (non-HDL, non-LDL -cholesterol) 115,082 European ancestry individuals C 0.482963 3E-12 11.523 rs553427 0.0286973 remnant cholesterol measurement (EFO:0010815)
PMID:35213538
None Available GCST90092964 Phospholipid levels in small LDL 115,082 European ancestry individuals C 0.482963 2E-15 14.699 rs553427 0.032725 low density lipoprotein cholesterol measurement (EFO:0004611)
phospholipid measurement (EFO:0004639)
PMID:35213538
GWAS976003_H GCST90092989 Total lipid levels in lipoprotein particles 115,082 European ancestry individuals C 0.482963 2E-12 11.699 rs553427 0.0285619 lipid measurement (EFO:0004529)
lipoprotein measurement (EFO:0004732)
PMID:35213538
GWAS977368_H GCST90092960 Free cholesterol levels in small LDL 115,082 European ancestry individuals C 0.482963 5E-14 13.302 rs553427 0.0310183 free cholesterol measurement (EFO:0008591)
low density lipoprotein cholesterol measurement (EFO:0004611)
PMID:35213538
GWAS978688_H GCST90092991 Total phospholipid levels in lipoprotein particles 115,082 European ancestry individuals C 0.482963 9E-10 9.046 rs553427 0.0240608 lipoprotein measurement (EFO:0004732)
phospholipid measurement (EFO:0004639)
PMID:35213538
Database Acc Id Source(s)
GWAS Catalog GCST90092908 GWAS Catalog
  GCST90092956 GWAS Catalog
  GCST90092986 GWAS Catalog

RGD Curation Notes
Note Type Note Reference