| Publication Information (EuropePMC) | |
| Title | Genome-wide analyses of variance in blood cell phenotypes provide new insights into complex trait biology and prediction. |
| PubMed ID | 40335489(Europe PMC) |
| doi | 10.1038/s41467-025-59525-4 |
| Publication Date | May 7, 2025 |
| Journal | Nat Commun |
| Author(s) | Xiang R, Ben-Eghan C, Liu Y, Roberts D, Ritchie S, Lambert SA, Xu Y, Takeuchi F, Inouye M. |
| Polygenic Score ID & Name | PGS Publication ID (PGP) | Reported Trait | Mapped Trait(s) (Ontology) | Number of Variants |
Ancestry distribution GWAS Dev Eval |
Scoring File (FTP Link) |
|---|---|---|---|---|---|---|
| PGS005196 (VPGS_RET_P) |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reticulocyte fraction of red cells variance | reticulocyte amount | 9,470,586 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005196/ScoringFiles/PGS005196.txt.gz |
| PGS005182 (VPGS_EO) |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Eosinophil count variance | eosinophil count | 8,862,968 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005182/ScoringFiles/PGS005182.txt.gz |
| PGS005177 (VPGS_HCT) |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Hematocrit variance | hematocrit | 9,502,208 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005177/ScoringFiles/PGS005177.txt.gz |
| PGS005183 (VPGS_EO_P) |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Eosinophil percentage of white cells variance | eosinophil percentage of leukocytes | 9,498,015 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005183/ScoringFiles/PGS005183.txt.gz |
| PGS005184 (VPGS_LYMPH_P) |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Lymphocyte percentage of white cells variance | lymphocyte percentage of leukocytes | 9,502,358 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005184/ScoringFiles/PGS005184.txt.gz |
| PGS005185 (VPGS_MCHC) |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Mean corpuscular hemoglobin concentration variance | mean corpuscular hemoglobin concentration | 9,502,181 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005185/ScoringFiles/PGS005185.txt.gz |
| PGS005186 (VPGS_MCH) |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Mean corpuscular hemoglobin variance | mean corpuscular hemoglobin | 9,498,745 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005186/ScoringFiles/PGS005186.txt.gz |
| PGS005187 (VPGS_MCV) |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Mean corpuscular volume variance | erythrocyte volume | 9,500,832 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005187/ScoringFiles/PGS005187.txt.gz |
| PGS005189 (VPGS_MONO) |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Monocyte count variance | monocyte count | 9,489,073 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005189/ScoringFiles/PGS005189.txt.gz |
| PGS005179 (VPGS_HLR) |
PGP000723 | Xiang R et al. Nat Commun (2025) |
High light scatter reticulocyte count variance | reticulocyte count | 9,481,520 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005179/ScoringFiles/PGS005179.txt.gz |
| PGS005188 (VPGS_MPV) |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Mean platelet volume variance | platelet volume | 9,454,052 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005188/ScoringFiles/PGS005188.txt.gz |
| PGS005193 (VPGS_PLT) |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Platelet count variance | platelet count | 9,451,248 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005193/ScoringFiles/PGS005193.txt.gz |
| PGS005197 (VPGS_WBC) |
PGP000723 | Xiang R et al. Nat Commun (2025) |
White blood cell count variance | leukocyte quantity | 9,503,677 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005197/ScoringFiles/PGS005197.txt.gz |
| PGS005178 (VPGS_HGB) |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Hemoglobin concentration variance | hemoglobin measurement | 9,500,975 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005178/ScoringFiles/PGS005178.txt.gz |
| PGS005194 (VPGS_PDW) |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Platelet distribution width variance | platelet component distribution width | 9,454,587 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005194/ScoringFiles/PGS005194.txt.gz |
| PGS005173 (VPGS_PCT) |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Plateletcrit variance | platelet crit | 9,451,377 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005173/ScoringFiles/PGS005173.txt.gz |
| PGS005175 (VPGS_BASO) |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Basophil count variance | basophil count | 9,437,557 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005175/ScoringFiles/PGS005175.txt.gz |
| PGS005176 (VPGS_RET) |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reticulocyte count variance | reticulocyte count | 9,469,884 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005176/ScoringFiles/PGS005176.txt.gz |
| PGS005195 (VPGS_RBC) |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Red blood cell count variance | erythrocyte count | 9,501,618 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005195/ScoringFiles/PGS005195.txt.gz |
| PGS005180 (VPGS_HLR_P) |
PGP000723 | Xiang R et al. Nat Commun (2025) |
High light scatter reticulocyte percentage of red cells variance | reticulocyte amount | 9,481,225 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005180/ScoringFiles/PGS005180.txt.gz |
| PGS005181 (VPGS_BASO_P) |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Basophil percentage of white cells variance | basophil percentage of leukocytes | 9,493,222 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005181/ScoringFiles/PGS005181.txt.gz |
| PGS005190 (VPGS_MONO_P) |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Monocyte percentage of white cells variance | monocyte percentage of leukocytes | 9,488,343 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005190/ScoringFiles/PGS005190.txt.gz |
| PGS005192 (VPGS_NEUT_P) |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Neutrophil percentage of white cells variance | neutrophil percentage of leukocytes | 9,499,990 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005192/ScoringFiles/PGS005192.txt.gz |
| PGS005191 (VPGS_NEUT) |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Neutrophil count variance | neutrophil count | 9,499,020 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005191/ScoringFiles/PGS005191.txt.gz |
| PGS005172 (VPGS_IRF) |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Immature fraction of reticulocytes variance | reticulocyte amount | 9,469,602 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005172/ScoringFiles/PGS005172.txt.gz |
| PGS005174 (VPGS_LYMPH) |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Lymphocyte count variance | lymphocyte count | 9,501,646 | - |
https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS005174/ScoringFiles/PGS005174.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 |
|---|---|---|---|---|---|---|---|---|---|
| PPM022530 | PGS005188 (VPGS_MPV) |
PSS012002| European Ancestry| 37,224 individuals |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reported Trait: Mean_platelet_volume | β: 0.0004 | — | R²: 0.36857 | — | effects of PGS*vPGS tested and shown in Supplementary Data 12) |
| PPM022531 | PGS005194 (VPGS_PDW) |
PSS012006| European Ancestry| 37,262 individuals |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reported Trait: Platelet_distribution_width | β: 0.01541 | — | R²: 0.07932 | — | effects of PGS*vPGS tested and shown in Supplementary Data 12) |
| PPM022532 | PGS005173 (VPGS_PCT) |
PSS012005| European Ancestry| 37,306 individuals |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reported Trait: Plateletcrit | β: 0.00182 | — | R²: 0.23808 | — | effects of PGS*vPGS tested and shown in Supplementary Data 12) |
| PPM022534 | PGS005187 (VPGS_MCV) |
PSS011999| European Ancestry| 40,080 individuals |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reported Trait: Mean_corpuscular_volume | β: 0.004 | — | R²: 0.21725 | — | effects of PGS*vPGS tested and shown in Supplementary Data 12) |
| PPM022536 | PGS005186 (VPGS_MCH) |
PSS011997| European Ancestry| 40,108 individuals |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reported Trait: Mean_corpuscular_hemoglobin | β: 0.00323 | — | R²: 0.24293 | — | effects of PGS*vPGS tested and shown in Supplementary Data 12) |
| PPM022537 | PGS005185 (VPGS_MCHC) |
PSS011998| European Ancestry| 40,265 individuals |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reported Trait: Mean_corpuscular_hemoglobin_concentration | β: 0.0054 | — | R²: 0.07687 | — | effects of PGS*vPGS tested and shown in Supplementary Data 12) |
| PPM022538 | PGS005178 (VPGS_HGB) |
PSS011991| European Ancestry| 40,329 individuals |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reported Trait: Hemoglobin_concentration | β: -0.00105 | — | R²: 0.09086 | — | effects of PGS*vPGS tested and shown in Supplementary Data 12) |
| PPM022539 | PGS005176 (VPGS_RET) |
PSS012009| European Ancestry| 40,253 individuals |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reported Trait: Reticulocyte_count | β: 0.00152 | — | R²: 0.19609 | — | effects of PGS*vPGS tested and shown in Supplementary Data 12) |
| PPM022540 | PGS005196 (VPGS_RET_P) |
PSS012010| European Ancestry| 40,286 individuals |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reported Trait: Reticulocyte_fraction_of_red_cells | β: 0.00239 | — | R²: 0.20119 | — | effects of PGS*vPGS tested and shown in Supplementary Data 12) |
| PPM022541 | PGS005172 (VPGS_IRF) |
PSS011994| European Ancestry| 40,227 individuals |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reported Trait: Immature_fraction_of_reticulocytes | β: 0.00036 | — | R²: 0.12936 | — | effects of PGS*vPGS tested and shown in Supplementary Data 12) |
| PPM022542 | PGS005179 (VPGS_HLR) |
PSS011992| European Ancestry| 40,244 individuals |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reported Trait: High_light_scatter_reticulocyte_count | β: 0.00402 | — | R²: 0.15693 | — | effects of PGS*vPGS tested and shown in Supplementary Data 12) |
| PPM022543 | PGS005180 (VPGS_HLR_P) |
PSS011993| European Ancestry| 40,225 individuals |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reported Trait: High_light_scatter_reticulocyte_percentage_of_red_cells | β: 0.00444 | — | R²: 0.16119 | — | effects of PGS*vPGS tested and shown in Supplementary Data 12) |
| PPM022544 | PGS005189 (VPGS_MONO) |
PSS012000| European Ancestry| 39,177 individuals |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reported Trait: Monocyte_count | β: 0.00023 | — | R²: 0.22394 | — | effects of PGS*vPGS tested and shown in Supplementary Data 12) |
| PPM022545 | PGS005191 (VPGS_NEUT) |
PSS012003| European Ancestry| 39,138 individuals |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reported Trait: Neutrophil_count | β: -0.00663 | — | R²: 0.12617 | — | effects of PGS*vPGS tested and shown in Supplementary Data 12) |
| PPM022546 | PGS005182 (VPGS_EO) |
PSS011988| European Ancestry| 40,276 individuals |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reported Trait: Eosinophil_count | β: -0.00819 | — | R²: 0.15465 | — | effects of PGS*vPGS tested and shown in Supplementary Data 12) |
| PPM022547 | PGS005175 (VPGS_BASO) |
PSS011986| European Ancestry| 39,986 individuals |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reported Trait: Basophil_count | β: 0.00181 | — | R²: 0.04262 | — | effects of PGS*vPGS tested and shown in Supplementary Data 12) |
| PPM022548 | PGS005174 (VPGS_LYMPH) |
PSS011995| European Ancestry| 39,191 individuals |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reported Trait: Lymphocyte_count | β: -0.00133 | — | R²: 0.16298 | — | effects of PGS*vPGS tested and shown in Supplementary Data 12) |
| PPM022549 | PGS005197 (VPGS_WBC) |
PSS012011| European Ancestry| 40,466 individuals |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reported Trait: White_blood_cell_count | β: -7e-05 | — | R²: 0.15092 | — | effects of PGS*vPGS tested and shown in Supplementary Data 12) |
| PPM022550 | PGS005190 (VPGS_MONO_P) |
PSS012001| European Ancestry| 39,189 individuals |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reported Trait: Monocyte_percentage_of_white_cells | β: 0.00025 | — | R²: 0.20758 | — | effects of PGS*vPGS tested and shown in Supplementary Data 12) |
| PPM022552 | PGS005183 (VPGS_EO_P) |
PSS011989| European Ancestry| 40,326 individuals |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reported Trait: Eosinophil_percentage_of_white_cells | β: -0.00454 | — | R²: 0.1422 | — | effects of PGS*vPGS tested and shown in Supplementary Data 12) |
| PPM022553 | PGS005181 (VPGS_BASO_P) |
PSS011987| European Ancestry| 40,133 individuals |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reported Trait: Basophil_percentage_of_white_cells | β: 0.00062 | — | R²: 0.03021 | — | effects of PGS*vPGS tested and shown in Supplementary Data 12) |
| PPM022554 | PGS005184 (VPGS_LYMPH_P) |
PSS011996| European Ancestry| 39,178 individuals |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reported Trait: Lymphocyte_percentage_of_white_cells | β: -0.00051 | — | R²: 0.10833 | — | effects of PGS*vPGS tested and shown in Supplementary Data 12) |
| PPM022535 | PGS005177 (VPGS_HCT) |
PSS011990| European Ancestry| 40,340 individuals |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reported Trait: Hematocrit | β: -0.00199 | — | R²: 0.08644 | — | effects of PGS*vPGS tested and shown in Supplementary Data 12) |
| PPM022529 | PGS005193 (VPGS_PLT) |
PSS012007| European Ancestry| 38,939 individuals |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reported Trait: Platelet_count | β: 0.00242 | — | R²: 0.28874 | — | effects of PGS*vPGS tested and shown in Supplementary Data 12) |
| PPM022533 | PGS005195 (VPGS_RBC) |
PSS012008| European Ancestry| 40,262 individuals |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reported Trait: Red_blood_cell_count | β: -0.00522 | — | R²: 0.1766 | — | effects of PGS*vPGS tested and shown in Supplementary Data 12) |
| PPM022551 | PGS005192 (VPGS_NEUT_P) |
PSS012004| European Ancestry| 39,190 individuals |
PGP000723 | Xiang R et al. Nat Commun (2025) |
Reported Trait: Neutrophil_percentage_of_white_cells | β: 0.00044 | — | R²: 0.10175 | — | effects of PGS*vPGS tested and shown in Supplementary Data 12) |
|
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 |
|---|---|---|---|---|---|---|---|---|
| PSS011986 | — | — | 39,986 individuals | — | European (British) |
— | INTERVAL | — |
| PSS011987 | — | — | 40,133 individuals | — | European (British) |
— | INTERVAL | — |
| PSS011988 | — | — | 40,276 individuals | — | European (British) |
— | INTERVAL | — |
| PSS011989 | — | — | 40,326 individuals | — | European (British) |
— | INTERVAL | — |
| PSS011990 | — | — | 40,340 individuals | — | European (British) |
— | INTERVAL | — |
| PSS011991 | — | — | 40,329 individuals | — | European (British) |
— | INTERVAL | — |
| PSS011992 | — | — | 40,244 individuals | — | European (British) |
— | INTERVAL | — |
| PSS011993 | — | — | 40,225 individuals | — | European (British) |
— | INTERVAL | — |
| PSS011994 | — | — | 40,227 individuals | — | European (British) |
— | INTERVAL | — |
| PSS011995 | — | — | 39,191 individuals | — | European (British) |
— | INTERVAL | — |
| PSS011996 | — | — | 39,178 individuals | — | European (British) |
— | INTERVAL | — |
| PSS011997 | — | — | 40,108 individuals | — | European (British) |
— | INTERVAL | — |
| PSS011998 | — | — | 40,265 individuals | — | European (British) |
— | INTERVAL | — |
| PSS011999 | — | — | 40,080 individuals | — | European (British) |
— | INTERVAL | — |
| PSS012000 | — | — | 39,177 individuals | — | European (British) |
— | INTERVAL | — |
| PSS012001 | — | — | 39,189 individuals | — | European (British) |
— | INTERVAL | — |
| PSS012002 | — | — | 37,224 individuals | — | European (British) |
— | INTERVAL | — |
| PSS012003 | — | — | 39,138 individuals | — | European (British) |
— | INTERVAL | — |
| PSS012004 | — | — | 39,190 individuals | — | European (British) |
— | INTERVAL | — |
| PSS012005 | — | — | 37,306 individuals | — | European (British) |
— | INTERVAL | — |
| PSS012006 | — | — | 37,262 individuals | — | European (British) |
— | INTERVAL | — |
| PSS012007 | — | — | 38,939 individuals | — | European (British) |
— | INTERVAL | — |
| PSS012008 | — | — | 40,262 individuals | — | European (British) |
— | INTERVAL | — |
| PSS012009 | — | — | 40,253 individuals | — | European (British) |
— | INTERVAL | — |
| PSS012010 | — | — | 40,286 individuals | — | European (British) |
— | INTERVAL | — |
| PSS012011 | — | — | 40,466 individuals | — | European (British) |
— | INTERVAL | — |