Trait: glomerular filtration rate

Experimental Factor Ontology (EFO) Information
Identifier EFO_0005208
Description measurement of the flow rate of filtered fluid through the kidney, calculated either by comparative measurements of substances in the blood and urine, or estimated from a blood test
Trait category
Other measurement
Synonym GFR
Mapped terms 4 mapped terms
  • MeSH:D005919
  • MedDRA:10018355
  • NCIt:C90505
  • SNOMEDCT:80274001
Child trait(s) GFR change measurement

Associated Polygenic Score(s)

Filter PGS by Participant Ancestry
Individuals included in:
G - Source of Variant Associations (GWAS)
D - Score Development/Training
E - PGS Evaluation
List of ancestries includes:
Display options:
Ancestry legend
Multi-ancestry (including European)
Multi-ancestry (excluding European)
African
East Asian
South Asian
Additional Asian Ancestries
European
Greater Middle Eastern
Hispanic or Latin American
Additional Diverse Ancestries
Not Reported
Note: This table shows all PGS for "glomerular filtration rate" and any child terms of this trait in the EFO hierarchy by default.
Polygenic Score ID & Name PGS Publication ID (PGP) Reported Trait Mapped Trait(s) (Ontology) Number of Variants Ancestry distribution Scoring File (FTP Link)
PGS000303
(GRS253_eGFR)
PGP000092 |
Xie T et al. Circ Genom Precis Med (2020)
Estimated glomerular filtration rate glomerular filtration rate 253
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000303/ScoringFiles/PGS000303.txt.gz
PGS000664
(GRS7_GFR)
PGP000124 |
Gorski M et al. Kidney Int (2020)
Rapid decline of glomerular filtration rate (GFR) GFR change measurement 7
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000664/ScoringFiles/PGS000664.txt.gz
PGS000682
(snpnet.eGFR)
PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
eGFR [ml/min/1.73m2] glomerular filtration rate 17,467
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000682/ScoringFiles/PGS000682.txt.gz - Check Terms/Licenses
PGS000860
(eGFR)
PGP000211 |
Aly DM et al. Nat Genet (2021)
Estimated glomerular filtration rate glomerular filtration rate 625
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000860/ScoringFiles/PGS000860.txt.gz
PGS000883
(eGFR_LDpredPRS)
PGP000229 |
Yu Z et al. J Am Soc Nephrol (2021)
Estimated glomerular filtration rate glomerular filtration rate 1,477,661
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000883/ScoringFiles/PGS000883.txt.gz
PGS000884
(eGFR_PTPRS)
PGP000229 |
Yu Z et al. J Am Soc Nephrol (2021)
Estimated glomerular filtration rate glomerular filtration rate 40,042
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000884/ScoringFiles/PGS000884.txt.gz
PGS000885
(eGFR_TOPSNPPRS)
PGP000229 |
Yu Z et al. J Am Soc Nephrol (2021)
Estimated glomerular filtration rate glomerular filtration rate 1,460
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000885/ScoringFiles/PGS000885.txt.gz

Performance Metrics

Disclaimer: The performance metrics are displayed as reported by the source studies. It is important to note that metrics are not necessarily comparable with each other. For example, metrics depend on the sample characteristics (described by the PGS Catalog Sample Set [PSS] ID), phenotyping, and statistical modelling. Please refer to the source publication for additional guidance on performance.

PGS Performance
Metric ID (PPM)
Evaluated Score PGS Sample Set ID
(PSS)
Performance Source Trait PGS Effect Sizes
(per SD change)
Classification Metrics Other Metrics Covariates Included in the Model PGS Performance:
Other Relevant Information
PPM000773 PGS000303
(GRS253_eGFR)
PSS000376|
European Ancestry|
1,354 individuals
PGP000092 |
Xie T et al. Circ Genom Precis Med (2020)
Reported Trait: Estimated glomerular filtration rate (mL/min per 1.73 m2) : 0.0504 Sex, age
PPM001371 PGS000664
(GRS7_GFR)
PSS000600|
European Ancestry|
11,440 individuals
PGP000124 |
Gorski M et al. Kidney Int (2020)
Reported Trait: Rapid decline of glomerular filtration rate estimated from creatinine (CKDi25) Odds Ratio (OR, high vs. low risk): 1.29 [1.06, 1.57] Age, sex and baseline eGFRcrea
PPM001372 PGS000664
(GRS7_GFR)
PSS000599|
European Ancestry|
3,447 individuals
PGP000124 |
Gorski M et al. Kidney Int (2020)
Reported Trait: Acute kidney injury Odds Ratio (OR, high vs. low risk): 1.2 [1.08, 1.33] Matching variables (age-group and sex), quantitative age
PPM001410 PGS000682
(snpnet.eGFR)
PSS000805|
African Ancestry|
6,016 individuals
PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
Reported Trait: eGFR [ml/min/1.73m2] : 0.17769
Spearman's ρ: 0.138
Age, sex, PCs(1-40)
PPM001445 PGS000682
(snpnet.eGFR)
PSS000806|
East Asian Ancestry|
1,081 individuals
PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
Reported Trait: eGFR [ml/min/1.73m2] : 0.21054
Spearman's ρ: 0.199
Age, sex, PCs(1-40)
PPM001480 PGS000682
(snpnet.eGFR)
PSS000807|
European Ancestry|
23,576 individuals
PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
Reported Trait: eGFR [ml/min/1.73m2] : 0.25538
Spearman's ρ: 0.299
Age, sex, PCs(1-40)
PPM001515 PGS000682
(snpnet.eGFR)
PSS000808|
South Asian Ancestry|
7,339 individuals
PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
Reported Trait: eGFR [ml/min/1.73m2] : 0.23182
Spearman's ρ: 0.252
Age, sex, PCs(1-40)
PPM001550 PGS000682
(snpnet.eGFR)
PSS000809|
European Ancestry|
63,758 individuals
PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
Reported Trait: eGFR [ml/min/1.73m2] : 0.24611
Spearman's ρ: 0.313
Age, sex, PCs(1-40)
PPM001592 PGS000682
(snpnet.eGFR)
PSS000810|
European Ancestry|
2,129 individuals
PGP000128 |
Sinnott-Armstrong N et al. Nat Genet (2021)
Reported Trait: eGFR [ml/min/1.73m2] Spearman's ρ: 0.219 Age, sex
PPM007335 PGS000682
(snpnet.eGFR)
PSS006911|
African Ancestry|
6,016 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.
Reported Trait: eGFR : 0.01637 [0.01025, 0.02249]
Incremental R2 (full-covars): 0.01318
PGS R2 (no covariates): 0.01368 [0.00807, 0.01929]
age, sex, UKB array type, Genotype PCs
PPM007336 PGS000682
(snpnet.eGFR)
PSS006912|
East Asian Ancestry|
1,578 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.
Reported Trait: eGFR : 0.03595 [0.01863, 0.05327]
Incremental R2 (full-covars): 0.01715
PGS R2 (no covariates): 0.0203 [0.00707, 0.03352]
age, sex, UKB array type, Genotype PCs
PPM007337 PGS000682
(snpnet.eGFR)
PSS006913|
European Ancestry|
23,574 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.
Reported Trait: eGFR : 0.06443 [0.05853, 0.07033]
Incremental R2 (full-covars): 0.06277
PGS R2 (no covariates): 0.06321 [0.05736, 0.06906]
age, sex, UKB array type, Genotype PCs
PPM007338 PGS000682
(snpnet.eGFR)
PSS006914|
South Asian Ancestry|
7,288 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.
Reported Trait: eGFR : 0.03876 [0.03038, 0.04714]
Incremental R2 (full-covars): 0.03269
PGS R2 (no covariates): 0.03296 [0.02519, 0.04073]
age, sex, UKB array type, Genotype PCs
PPM007339 PGS000682
(snpnet.eGFR)
PSS006915|
European Ancestry|
63,753 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
|Ext.
Reported Trait: eGFR : 0.07514 [0.07131, 0.07897]
Incremental R2 (full-covars): 0.07513
PGS R2 (no covariates): 0.07525 [0.07142, 0.07908]
age, sex, UKB array type, Genotype PCs
PPM002383 PGS000860
(eGFR)
PSS001086|
European Ancestry|
3,194 individuals
PGP000211 |
Aly DM et al. Nat Genet (2021)
Reported Trait: Severe Autoimmune Diabetes OR: 1.04 [0.94, 1.15] PC1-10
PPM002384 PGS000860
(eGFR)
PSS001087|
European Ancestry|
3,930 individuals
PGP000211 |
Aly DM et al. Nat Genet (2021)
Reported Trait: Severe Insulin-Deficient Diabetes OR: 1.02 [0.96, 1.1] PC1-10
PPM002386 PGS000860
(eGFR)
PSS001085|
European Ancestry|
4,116 individuals
PGP000211 |
Aly DM et al. Nat Genet (2021)
Reported Trait: Moderate Obesity-related Diabetes OR: 1.03 [0.96, 1.1] PC1-10
PPM002387 PGS000860
(eGFR)
PSS001084|
European Ancestry|
5,597 individuals
PGP000211 |
Aly DM et al. Nat Genet (2021)
Reported Trait: Moderate Age-Related Diabetes OR: 1.07 [1.02, 1.13] PC1-10
PPM002385 PGS000860
(eGFR)
PSS001088|
European Ancestry|
3,869 individuals
PGP000211 |
Aly DM et al. Nat Genet (2021)
Reported Trait: Severe Insulin-Resistant Diabetes OR: 1.04 [0.97, 1.11] PC1-10
PPM002529 PGS000883
(eGFR_LDpredPRS)
PSS001143|
European Ancestry|
8,886 individuals
PGP000229 |
Yu Z et al. J Am Soc Nephrol (2021)
Reported Trait: Incident end stage kidney disease HR: 1.24 age at baseline, sex, center, first 10 genetic principal components, education, baseline body mass index, baseline smoking status, baseline history of hypertension, diabetes, and coronary heart disease
PPM002531 PGS000883
(eGFR_LDpredPRS)
PSS001143|
European Ancestry|
8,886 individuals
PGP000229 |
Yu Z et al. J Am Soc Nephrol (2021)
Reported Trait: Incident acute kidney injury HR: 1.05 age at baseline, sex, center, first 10 genetic principal components, education, baseline body mass index, baseline smoking status, baseline history of hypertension, diabetes, and coronary heart disease
PPM002532 PGS000883
(eGFR_LDpredPRS)
PSS001143|
European Ancestry|
8,886 individuals
PGP000229 |
Yu Z et al. J Am Soc Nephrol (2021)
Reported Trait: Estimated glomerular filtration rate (eGFR) : 0.0713 age at baseline, sex, center, first 10 genetic principal components
PPM002528 PGS000883
(eGFR_LDpredPRS)
PSS001143|
European Ancestry|
8,886 individuals
PGP000229 |
Yu Z et al. J Am Soc Nephrol (2021)
Reported Trait: Incident chronic kidney disease HR: 1.32 AUROC: 0.677 age at baseline, sex, center, first 10 genetic principal components, education, baseline body mass index, baseline smoking status, baseline history of hypertension, diabetes, and coronary heart disease
PPM002530 PGS000883
(eGFR_LDpredPRS)
PSS001143|
European Ancestry|
8,886 individuals
PGP000229 |
Yu Z et al. J Am Soc Nephrol (2021)
Reported Trait: Incident kidney failure HR: 1.17 age at baseline, sex, center, first 10 genetic principal components, education, baseline body mass index, baseline smoking status, baseline history of hypertension, diabetes, and coronary heart disease
PPM002533 PGS000884
(eGFR_PTPRS)
PSS001143|
European Ancestry|
8,886 individuals
PGP000229 |
Yu Z et al. J Am Soc Nephrol (2021)
Reported Trait: Incident chronic kidney disease HR: 1.3 age at baseline, sex, center, first 10 genetic principal components, education, baseline body mass index, baseline smoking status, baseline history of hypertension, diabetes, and coronary heart disease
PPM002534 PGS000884
(eGFR_PTPRS)
PSS001143|
European Ancestry|
8,886 individuals
PGP000229 |
Yu Z et al. J Am Soc Nephrol (2021)
Reported Trait: Incident end stage kidney disease HR: 1.28 age at baseline, sex, center, first 10 genetic principal components, education, baseline body mass index, baseline smoking status, baseline history of hypertension, diabetes, and coronary heart disease
PPM002535 PGS000884
(eGFR_PTPRS)
PSS001143|
European Ancestry|
8,886 individuals
PGP000229 |
Yu Z et al. J Am Soc Nephrol (2021)
Reported Trait: Incident kidney failure HR: 1.2 age at baseline, sex, center, first 10 genetic principal components, education, baseline body mass index, baseline smoking status, baseline history of hypertension, diabetes, and coronary heart disease
PPM002536 PGS000884
(eGFR_PTPRS)
PSS001143|
European Ancestry|
8,886 individuals
PGP000229 |
Yu Z et al. J Am Soc Nephrol (2021)
Reported Trait: Incident acute kidney injury HR: 1.04 age at baseline, sex, center, first 10 genetic principal components, education, baseline body mass index, baseline smoking status, baseline history of hypertension, diabetes, and coronary heart disease
PPM002537 PGS000884
(eGFR_PTPRS)
PSS001143|
European Ancestry|
8,886 individuals
PGP000229 |
Yu Z et al. J Am Soc Nephrol (2021)
Reported Trait: Estimated glomerular filtration rate (eGFR) : 0.0599 age at baseline, sex, center, first 10 genetic principal components
PPM002538 PGS000885
(eGFR_TOPSNPPRS)
PSS001143|
European Ancestry|
8,886 individuals
PGP000229 |
Yu Z et al. J Am Soc Nephrol (2021)
Reported Trait: Incident chronic kidney disease HR: 1.25 age at baseline, sex, center, first 10 genetic principal components, education, baseline body mass index, baseline smoking status, baseline history of hypertension, diabetes, and coronary heart disease
PPM002539 PGS000885
(eGFR_TOPSNPPRS)
PSS001143|
European Ancestry|
8,886 individuals
PGP000229 |
Yu Z et al. J Am Soc Nephrol (2021)
Reported Trait: Incident end stage kidney disease HR: 1.12 age at baseline, sex, center, first 10 genetic principal components, education, baseline body mass index, baseline smoking status, baseline history of hypertension, diabetes, and coronary heart disease
PPM002540 PGS000885
(eGFR_TOPSNPPRS)
PSS001143|
European Ancestry|
8,886 individuals
PGP000229 |
Yu Z et al. J Am Soc Nephrol (2021)
Reported Trait: Incident kidney failure HR: 1.13 age at baseline, sex, center, first 10 genetic principal components, education, baseline body mass index, baseline smoking status, baseline history of hypertension, diabetes, and coronary heart disease
PPM002541 PGS000885
(eGFR_TOPSNPPRS)
PSS001143|
European Ancestry|
8,886 individuals
PGP000229 |
Yu Z et al. J Am Soc Nephrol (2021)
Reported Trait: Incident acute kidney injury HR: 1.0 age at baseline, sex, center, first 10 genetic principal components, education, baseline body mass index, baseline smoking status, baseline history of hypertension, diabetes, and coronary heart disease
PPM002542 PGS000885
(eGFR_TOPSNPPRS)
PSS001143|
European Ancestry|
8,886 individuals
PGP000229 |
Yu Z et al. J Am Soc Nephrol (2021)
Reported Trait: Estimated glomerular filtration rate (eGFR) : 0.0478 age at baseline, sex, center, first 10 genetic principal components

Evaluated Samples

PGS Sample Set ID
(PSS)
Phenotype Definitions and Methods Participant Follow-up Time Sample Numbers Age of Study Participants Sample Ancestry Additional Ancestry Description Cohort(s) Additional Sample/Cohort Information
PSS000807 23,576 individuals European Non-British White UKB
PSS000808 7,339 individuals South Asian UKB
PSS000809 63,758 individuals European
(British)
UKB
PSS000810 2,129 individuals European Participants self-identifying as white MESA
PSS001143 log transformed eGFR based on 2012 CKD-EPI creatinine equation Mean = 30.0 years 8,886 individuals,
0.47 % Male samples
Mean = 54.3 years European ARIC
PSS000376 We measured weight and height using regularly calibrated equipment (scales and stadiometer models 770 and 214, respectively; Seca, Hamburg, Germany). Body mass index (BMI; in kg/m2) was also calculated. We measured waist circumference at the midpoint between the lower costal margin and the iliac crest. The hip circumference was measured over both trochanter majores (tangible bone on the outside of the hip joint). Waist to hip ratio was also calculated. We performed all measurements in duplicate, and, if the difference between these measurements exceeded a predefined value, a third measurement was performed. All available measurements were used to calculate means. Heart rate, systolic (SBP) and diastolic (DBP) blood pressure were measured in duplicate with a Dinamap Critikon 1846SX (Critikon Inc, Tampa, FL), from which we calculated means. At the third visit, fasting blood sample of participants were drawn for the measurement of glucose (Roche Diagnostics, Basel, Switzerland), insulin (Diagnostic Systems Laboratories Inc, Webster, TX), HbA1c (high performance liquid chromatography, Variant, Bio-Rad), triglycerides, total cholesterol, HDL cholesterol (Roche Diagnostics) and LDL cholesterol (calculated according to Friedewald’s equation5), as well as alanine transaminase (Photometric determination according to the reference method of the International Federation of Clinical Chemistry (IFCC)6) and lipoprotein(a) (Nephelometric method, BN2, DadeBehring). Serum creatinine was measured by photometric determination with the Jaffé method without deproteinisation (Ecoline® MEGA, DiaSys Diagnostic Systems GmbH. Merck). eGFR for adolescents who were younger than 18 years old was calculated using the Schwartz formula.7 High‐sensitivity C‐reactive protein (hsCRP) was determined using an immunonephelometric method, BN2 (CardioPhase hsCRP, Siemens) with a lower detection limit of 0.175 mg/L. Total IgE measurements were performed using the Phadia Immunocap 100 system with fluoroenzyme immunoassay (FEIA). 1,354 individuals,
47.56 % Male samples
Mean = 16.22 years
Sd = 0.66 years
European TRAILS
PSS001084 Moderate Age-Related Diabetes (MARD) vs. controls
[
  • 2,853 cases
  • , 2,744 controls
]
European Swedish ANDIS
PSS001085 Moderate Obesity-related Diabetes (MOD) vs. controls
[
  • 1,372 cases
  • , 2,744 controls
]
European Swedish ANDIS
PSS001086 Severe Autoimmune Diabetes (SAID) vs. controls
[
  • 450 cases
  • , 2,744 controls
]
European Swedish ANDIS
PSS001087 Severe Insulin-Deficient Diabetes (SIDD) vs. controls
[
  • 1,186 cases
  • , 2,744 controls
]
European Swedish ANDIS
PSS001088 Severe Insulin-Resistant Diabetes (SIRD) vs. controls
[
  • 1,125 cases
  • , 2,744 controls
]
European Swedish ANDIS
PSS006911 6,016 individuals African unspecified UKB
PSS006912 1,578 individuals East Asian UKB
PSS006913 23,574 individuals European non-white British ancestry UKB
PSS006914 7,288 individuals South Asian UKB
PSS006915 63,753 individuals European white British ancestry UKB Testing cohort (heldout set)
PSS000599 Cases: ICD 10 code N17. Controls: no ICD10 code N17, frequency-matched by age-group and sex
[
  • 1,013 cases
  • , 2,434 controls
]
European UKB Possible overlap between GWAS cohorts and this dataset.
PSS000600 CKDi25 cases defined as >25% eGFRcrea decline during follow-up together with a movement from eGFRcrea≥60 mL/min/1.73m^2 at baseline to eGFR<60 mL/min/1.73m^2 at follow up compared to CKDi25 controls defined as eGFRcrea≥60 mL/min/1.73m^2. High risk groups had 8-14 adverse alleles. Low risk groups had 0-5 adverse alleles.
[
  • 448 cases
  • , 10,992 controls
]
European DIACORE, KORA, UKB 87.61% overlap between the CKDi25 GWAS cohort and this dataset.
PSS000805 6,016 individuals African unspecified UKB
PSS000806 1,081 individuals East Asian UKB