Trait: chronotype measurement

Experimental Factor Ontology (EFO) Information
Identifier EFO_0008328
Description quantification of some aspect of chronotype such as ease of getting up in the morning
Trait category
Other 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
Polygenic Score ID & Name PGS Publication ID (PGP) Reported Trait Mapped Trait(s) (Ontology) Number of Variants Ancestry distribution Scoring File (FTP Link)
PGS000336
(GRS313_Chron)
PGP000103 |
Maukonen M et al. J Biol Rhythms (2020)
Chronotype chronotype measurement 313
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS000336/ScoringFiles/PGS000336.txt.gz
PGS001055
(GBE_QT_FC1001180)
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Chronotype (morning/evening person) chronotype measurement 11,428
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001055/ScoringFiles/PGS001055.txt.gz
PGS001992
(portability-PLR_more_evening)
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Morning/evening person (chronotype) chronotype measurement 61,542
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS001992/ScoringFiles/PGS001992.txt.gz
PGS002209
(portability-ldpred2_more_evening)
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Morning/evening person (chronotype) chronotype measurement 955,439
-
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002209/ScoringFiles/PGS002209.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
PPM000905 PGS000336
(GRS313_Chron)
PSS000452|
European Ancestry|
7,436 individuals
PGP000103 |
Maukonen M et al. J Biol Rhythms (2020)
Reported Trait: Later (evening) chronotype OR: 1.24 [1.18, 1.31] : 0.01312 Age, sex, PCs (1-5), genotyping batch
PPM000904 PGS000336
(GRS313_Chron)
PSS000453|
European Ancestry|
7,436 individuals
PGP000103 |
Maukonen M et al. J Biol Rhythms (2020)
Reported Trait: Later (evening) chronotype β: -0.49 (0.05) : 0.01378 Age, sex, PCs (1-5), genotyping batch
PPM000906 PGS000336
(GRS313_Chron)
PSS000451|
European Ancestry|
8,433 individuals
PGP000103 |
Maukonen M et al. J Biol Rhythms (2020)
Reported Trait: Later (evening) chronotype OR: 1.3 [1.24, 1.37] : 0.01893 Age, sex, PCs (1-5), genotyping batch
PPM008033 PGS001055
(GBE_QT_FC1001180)
PSS007526|
African Ancestry|
5,462 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Morning/evening person (chronotype) : 0.01035 [0.00546, 0.01524]
Incremental R2 (full-covars): -2e-05
PGS R2 (no covariates): 0.00256 [0.00011, 0.00502]
age, sex, UKB array type, Genotype PCs
PPM008034 PGS001055
(GBE_QT_FC1001180)
PSS007527|
East Asian Ancestry|
1,493 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Morning/evening person (chronotype) : 0.06869 [0.04556, 0.09182]
Incremental R2 (full-covars): 0.01362
PGS R2 (no covariates): 0.01779 [0.00537, 0.0302]
age, sex, UKB array type, Genotype PCs
PPM008035 PGS001055
(GBE_QT_FC1001180)
PSS007528|
European Ancestry|
22,724 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Morning/evening person (chronotype) : 0.04053 [0.03573, 0.04533]
Incremental R2 (full-covars): 0.02842
PGS R2 (no covariates): 0.02756 [0.02355, 0.03157]
age, sex, UKB array type, Genotype PCs
PPM008036 PGS001055
(GBE_QT_FC1001180)
PSS007529|
South Asian Ancestry|
6,662 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Morning/evening person (chronotype) : 0.02298 [0.01642, 0.02954]
Incremental R2 (full-covars): 0.00656
PGS R2 (no covariates): 0.00831 [0.00431, 0.01232]
age, sex, UKB array type, Genotype PCs
PPM008037 PGS001055
(GBE_QT_FC1001180)
PSS007530|
European Ancestry|
60,873 individuals
PGP000244 |
Tanigawa Y et al. PLoS Genet (2022)
Reported Trait: Morning/evening person (chronotype) : 0.04074 [0.03781, 0.04366]
Incremental R2 (full-covars): 0.03053
PGS R2 (no covariates): 0.03101 [0.02844, 0.03359]
age, sex, UKB array type, Genotype PCs
PPM010811 PGS001992
(portability-PLR_more_evening)
PSS009475|
European Ancestry|
17,895 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Morning/evening person (chronotype) Partial Correlation (partial-r): 0.2051 [0.191, 0.2191] sex, age, birth date, deprivation index, 16 PCs
PPM010812 PGS001992
(portability-PLR_more_evening)
PSS009249|
European Ancestry|
3,779 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Morning/evening person (chronotype) Partial Correlation (partial-r): 0.2007 [0.1699, 0.2312] sex, age, birth date, deprivation index, 16 PCs
PPM010813 PGS001992
(portability-PLR_more_evening)
PSS008803|
European Ancestry|
5,965 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Morning/evening person (chronotype) Partial Correlation (partial-r): 0.2002 [0.1757, 0.2245] sex, age, birth date, deprivation index, 16 PCs
PPM010814 PGS001992
(portability-PLR_more_evening)
PSS008577|
Greater Middle Eastern Ancestry|
982 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Morning/evening person (chronotype) Partial Correlation (partial-r): 0.1307 [0.0681, 0.1924] sex, age, birth date, deprivation index, 16 PCs
PPM010815 PGS001992
(portability-PLR_more_evening)
PSS008355|
South Asian Ancestry|
5,368 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Morning/evening person (chronotype) Partial Correlation (partial-r): 0.1219 [0.0954, 0.1482] sex, age, birth date, deprivation index, 16 PCs
PPM010816 PGS001992
(portability-PLR_more_evening)
PSS008132|
East Asian Ancestry|
1,598 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Morning/evening person (chronotype) Partial Correlation (partial-r): 0.1252 [0.0763, 0.1735] sex, age, birth date, deprivation index, 16 PCs
PPM010817 PGS001992
(portability-PLR_more_evening)
PSS007919|
African Ancestry|
2,172 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Morning/evening person (chronotype) Partial Correlation (partial-r): 0.0871 [0.045, 0.1288] sex, age, birth date, deprivation index, 16 PCs
PPM010818 PGS001992
(portability-PLR_more_evening)
PSS009023|
African Ancestry|
3,156 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Morning/evening person (chronotype) Partial Correlation (partial-r): 0.0562 [0.0212, 0.091] sex, age, birth date, deprivation index, 16 PCs
PPM012519 PGS002209
(portability-ldpred2_more_evening)
PSS009475|
European Ancestry|
17,895 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Morning/evening person (chronotype) Partial Correlation (partial-r): 0.2185 [0.2045, 0.2324] sex, age, birth date, deprivation index, 16 PCs
PPM012520 PGS002209
(portability-ldpred2_more_evening)
PSS009249|
European Ancestry|
3,779 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Morning/evening person (chronotype) Partial Correlation (partial-r): 0.2126 [0.1819, 0.2429] sex, age, birth date, deprivation index, 16 PCs
PPM012521 PGS002209
(portability-ldpred2_more_evening)
PSS008803|
European Ancestry|
5,965 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Morning/evening person (chronotype) Partial Correlation (partial-r): 0.2127 [0.1883, 0.2369] sex, age, birth date, deprivation index, 16 PCs
PPM012522 PGS002209
(portability-ldpred2_more_evening)
PSS008577|
Greater Middle Eastern Ancestry|
982 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Morning/evening person (chronotype) Partial Correlation (partial-r): 0.1562 [0.0939, 0.2172] sex, age, birth date, deprivation index, 16 PCs
PPM012523 PGS002209
(portability-ldpred2_more_evening)
PSS008355|
South Asian Ancestry|
5,368 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Morning/evening person (chronotype) Partial Correlation (partial-r): 0.1382 [0.1118, 0.1644] sex, age, birth date, deprivation index, 16 PCs
PPM012524 PGS002209
(portability-ldpred2_more_evening)
PSS008132|
East Asian Ancestry|
1,598 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Morning/evening person (chronotype) Partial Correlation (partial-r): 0.1281 [0.0793, 0.1764] sex, age, birth date, deprivation index, 16 PCs
PPM012526 PGS002209
(portability-ldpred2_more_evening)
PSS009023|
African Ancestry|
3,156 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Morning/evening person (chronotype) Partial Correlation (partial-r): 0.0664 [0.0315, 0.1012] sex, age, birth date, deprivation index, 16 PCs
PPM012525 PGS002209
(portability-ldpred2_more_evening)
PSS007919|
African Ancestry|
2,172 individuals
PGP000263 |
Privé F et al. Am J Hum Genet (2022)
Reported Trait: Morning/evening person (chronotype) Partial Correlation (partial-r): 0.0826 [0.0405, 0.1245] sex, age, birth date, deprivation index, 16 PCs

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
PSS008132 1,598 individuals East Asian China (East Asia) UKB
PSS008355 5,368 individuals South Asian India (South Asia) UKB
PSS000451 Chronotype was assessed using a singl self-evaluatation question from a shortend version of Horne and Ostber'gs MEQ (sMEQ) on chronotype. The sMEQ included 6 items (items 4,7,9,15,17 and 19) from the original MEQ. The answers were scored according to the scoring of the original MEQ. For the single self-evaluation question item 19 was used. The question was used as a binary varable in which those who replied either "rather more an evening than a morning type" or "definitely an evening type" were regarded as evening types, and those who replied "definitely a morning type" or "rather more a morning type than an evening type" were regarrded as morning types.
[
  • 4,674 cases
  • , 3,759 controls
]
,
47.78 % Male samples
European
(Finnish)
FINRISK Included participants from the National FINRISK 2007 and 2012 studies
PSS000452 Chronotype was assessed using a shortend version of Horne and Ostberg's MEQ(sMEQ) . The sMEQ included 6 items (items 4,7,9,15,17 and 19) from the original MEQ. The answers were scored according to the scoring of the original MEQ. The sum score was used as a binary variable (evening type: socres from 5-15, morning type: socres from 16 to 27; binary sMEQ score).
[
  • 2,364 cases
  • , 5,072 controls
]
,
46.4 % Male samples
European
(Finnish)
FINRISK Included participants from the National FINRISK 2007 and 2012 studies
PSS000453 Chronotype was assessed using a shortend version of Horne and Ostberg's MEQ(sMEQ) The sMEQ included 6 items (items 4,7,9,15,17 and 19) from the original MEQ. The answers were scored according to the scoring of the original MEQ. The sum score was used as a continuous variable (continuous sMEQ score). 7,436 individuals European
(Finnish)
FINRISK Included participants from the National FINRISK 2007 and 2012 studies
PSS008577 982 individuals Greater Middle Eastern (Middle Eastern, North African or Persian) Iran (Middle East) UKB
PSS007526 5,462 individuals African unspecified UKB
PSS007527 1,493 individuals East Asian UKB
PSS007528 22,724 individuals European non-white British ancestry UKB
PSS007529 6,662 individuals South Asian UKB
PSS007530 60,873 individuals European white British ancestry UKB Testing cohort (heldout set)
PSS007919 2,172 individuals African American or Afro-Caribbean Carribean UKB
PSS008803 5,965 individuals European Italy (South Europe) UKB
PSS009023 3,156 individuals African unspecified Nigeria (West Africa) UKB
PSS009249 3,779 individuals European Poland (NE Europe) UKB
PSS009475 17,895 individuals European UK (+ Ireland) UKB