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
|
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 |
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] | — | R²: 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) | — | R²: 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] | — | R²: 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) | — | — | R²: 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) | — | — | R²: 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) | — | — | R²: 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) | — | — | R²: 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) | — | — | R²: 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 | — |
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. | — | [ ,
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). | — | [ ,
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 | — |