PGS Publication: PGP000293

Publication Information (EuropePMC)
Title Predicting Pancreatic Cancer in the UK Biobank Cohort Using Polygenic Risk Scores and Diabetes Mellitus.
PubMed ID 35065983(Europe PMC)
doi 10.1053/j.gastro.2022.01.016
Publication Date Jan. 21, 2022
Journal Gastroenterology
Author(s) Sharma S, Tapper WJ, Collins A, Hamady ZZR.
Released in PGS Catalog: March 16, 2022

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

PGS Developed By This Publication

JSONXMLCSVTXTMS-Excel
Loading, please wait
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)
PGS002264
(PRS_Combined)
PGP000293 |
Sharma S et al. Gastroenterology (2022)
Pancreatic ductal adenocarcinomapancreatic ductal adenocarcinoma49
G
-
E
 https://ftp.ebi.ac.uk/pub/databases/spot/pgs/scores/PGS002264/ScoringFiles/PGS002264.txt.gz
Showing 1 to 1 of 1 rows

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.

JSONXMLCSVTXTMS-Excel
Loading, please wait
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
PPM012888PGS002264
(PRS_Combined)
PSS009595|
Ancestry Not Reported|
11,462 individuals
PGP000293 |
Sharma S et al. Gastroenterology (2022)
Reported Trait: Incident pancreatic ductal adenocarcinoma—AUROC: 0.605 [0.587, 0.623]Positive predictive values (PPV highest quintile): 14.4 [13, 15.9]——
PPM012889PGS002264
(PRS_Combined)
PSS009595|
Ancestry Not Reported|
11,462 individuals
PGP000293 |
Sharma S et al. Gastroenterology (2022)
Reported Trait: Incident pancreatic ductal adenocarcinoma——HR (highest vs lowest quintile): 2.738 [2.227, 3.365]Smoking (never, current and previous), waist circumference (cm), DM onset (No DM, NODM, LSDM) and fi... rst-degree family history of digestive cancer (yes/no)Show more—
PPM012890PGS002264
(PRS_Combined)
PSS009595|
Ancestry Not Reported|
11,462 individuals
PGP000293 |
Sharma S et al. Gastroenterology (2022)
Reported Trait: Incident pancreatic ductal adenocarcinoma—AUROC: 0.83 [0.8, 0.86]—Age of participants at recruitment, age when DM diagnosed, DM onset (No DM, NODM, LSDM), waist circu... mference (cm), and first-degree family history of digestive cancer (yes/no)., clinical riskShow more—
PPM012891PGS002264
(PRS_Combined)
PSS009595|
Ancestry Not Reported|
11,462 individuals
PGP000293 |
Sharma S et al. Gastroenterology (2022)
Reported Trait: Incident pancreatic ductal adenocarcinomaOR: 1.43——principal components (PC 1-10)—
PPM012892PGS002264
(PRS_Combined)
PSS009598|
Ancestry Not Reported|
10,259 individuals
PGP000293 |
Sharma S et al. Gastroenterology (2022)
Reported Trait: Incident pancreatic ductal adenocarcinoma (without diabetes mellitus)—AUROC: 0.594 [0.573, 0.614]Positive predictive values (PPV highest quintile): 0.119 [0.105, 0.134]——
PPM012893PGS002264
(PRS_Combined)
PSS009598|
Ancestry Not Reported|
10,259 individuals
PGP000293 |
Sharma S et al. Gastroenterology (2022)
Reported Trait: Incident pancreatic ductal adenocarcinoma (without diabetes mellitus)OR: 1.386 [1.288, 1.492]——principal components (PC 1-10)—
PPM012894PGS002264
(PRS_Combined)
PSS009600|
Ancestry Not Reported|
206 individuals
PGP000293 |
Sharma S et al. Gastroenterology (2022)
Reported Trait: Incident pancreatic ductal adenocarcinoma (with long-standing diabetes mellitus)——Positive predictive values (PPV highest quintile): 0.239 [0.181, 0.303]——
PPM012895PGS002264
(PRS_Combined)
PSS009600|
Ancestry Not Reported|
206 individuals
PGP000293 |
Sharma S et al. Gastroenterology (2022)
Reported Trait: Incident pancreatic ductal adenocarcinoma (with long-standing diabetes mellitus)OR: 1.873 [1.53, 2.292]——principal components (PC 1-10)—
PPM012896PGS002264
(PRS_Combined)
PSS009601|
Ancestry Not Reported|
998 individuals
PGP000293 |
Sharma S et al. Gastroenterology (2022)
Reported Trait: Incident pancreatic ductal adenocarcinoma (with new onset diabetes mellitus)——Positive predictive values (PPV highest quintile): 0.867 [0.732, 0.949]——
PPM012897PGS002264
(PRS_Combined)
PSS009601|
Ancestry Not Reported|
998 individuals
PGP000293 |
Sharma S et al. Gastroenterology (2022)
Reported Trait: Incident pancreatic ductal adenocarcinoma (with new onset diabetes mellitus)OR: 1.885 [1.279, 2.778]——principal components (PC 1-10)—
PPM012898PGS002264
(PRS_Combined)
PSS009596|
Ancestry Not Reported|
1,203 individuals
PGP000293 |
Sharma S et al. Gastroenterology (2022)
Reported Trait: Incident pancreatic ductal adenocarcinoma (with diabetes mellitus)OR: 1.674 [1.443, 1.942]——principal components (PC 1-10)—
PPM012899PGS002264
(PRS_Combined)
PSS009596|
Ancestry Not Reported|
1,203 individuals
PGP000293 |
Sharma S et al. Gastroenterology (2022)
Reported Trait: Incident pancreatic ductal adenocarcinoma (with diabetes mellitus)—AUROC: 0.645———
PPM012900PGS002264
(PRS_Combined)
PSS009597|
Ancestry Not Reported|
242 individuals
PGP000293 |
Sharma S et al. Gastroenterology (2022)
Reported Trait: Incident pancreatic ductal adenocarcinoma (< 60 years)OR: 1.633 [1.292, 2.064]——principal components (PC 1-10)—
PPM012901PGS002264
(PRS_Combined)
PSS009599|
Ancestry Not Reported|
274 individuals
PGP000293 |
Sharma S et al. Gastroenterology (2022)
Reported Trait: Incident pancreatic ductal adenocarcinoma (60 years)OR: 1.538 [1.287, 1.837]——principal components (PC 1-10)—
Showing 1 to 14 of 14 rows

Evaluated Samples

JSONXMLCSVTXTMS-Excel
Loading, please wait
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
PSS009595PDAC cases were considered incident if diagnosed after study entry or without a date of diagnosis if...  identified by mortality alone.Show moreMedian = 109.0 months
[
  • 1,042 cases
  • , 10,420 controls
]
,
52.0 % Male samples
Mean = 61.3 yearsNot reportedEuropean, African American or Afro-Caribbean, South Asian, East Asian, African unspecifiedUKB—
PSS009596PDAC cases were considered incident if diagnosed after study entry or without a date of diagnosis if...  identified by mortality alone.Show more—
[
  • 251 cases
  • , 952 controls
]
—Not reportedEuropean, African American or Afro-Caribbean, South Asian, East Asian, African unspecifiedUKB—
PSS009597PDAC cases were considered incident if diagnosed after study entry or without a date of diagnosis if...  identified by mortality alone.Show more—
[
  • 37 cases
  • , 205 controls
]
Not reportedEuropean, African American or Afro-Caribbean, South Asian, East Asian, African unspecifiedUKB—
PSS009598PDAC cases were considered incident if diagnosed after study entry or without a date of diagnosis if...  identified by mortality alone.Show more—
[
  • 791 cases
  • , 9,468 controls
]
—Not reportedEuropean, African American or Afro-Caribbean, South Asian, East Asian, African unspecifiedUKB—
PSS009599PDAC cases were considered incident if diagnosed after study entry or without a date of diagnosis if...  identified by mortality alone.Show more—
[
  • 55 cases
  • , 219 controls
]
Not reportedEuropean, African American or Afro-Caribbean, South Asian, East Asian, African unspecifiedUKB—
PSS009600PDAC cases were considered incident if diagnosed after study entry or without a date of diagnosis if...  identified by mortality alone. LSDM is defined in cases as type 2 diabetes diagnosed more than 24 months before PDAC diagnosis. Defined in controls as type 2 diabetes diagnosed more than 24 months before date of death or date of last follow up.Show more—
[
  • 135 cases
  • , 70 controls
]
—Not reportedEuropean, African American or Afro-Caribbean, South Asian, East Asian, African unspecifiedUKB—
PSS009601PDAC cases were considered incident if diagnosed after study entry or without a date of diagnosis if...  identified by mortality alone. NODM is defined in cases as type 2 diabetes diagnosed within 24 months before or after diagnosis of PDAC. Defined in controls as type 2 diabetes diagnosed 24 months before death or last follow up.Show more—
[
  • 116 cases
  • , 882 controls
]
—Not reportedEuropean, African American or Afro-Caribbean, South Asian, East Asian, African unspecifiedUKB—
Showing 1 to 7 of 7 rows