Evidence map›Paper›PMID 35437332›Full record

ArticleNature medicine2022

Development of a clinical polygenic risk score assay and reporting workflow.

Limin Hao, Peter Kraft, Gabriel F Berriz, Elizabeth D Hynes, Christopher Koch, Prathik Korategere V Kumar, Shruti S Parpattedar, Marcie Steeves, Wanfeng Yu, Ashley A Antwi and 10 more

Open access · hybridAbstract read
In one paragraph

Article in Nature medicine, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 119 papers, 2 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
119citing papers in PubMed, 2 pooled it
33.3field-weighted citation impact, top 1% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

119 citing papers in PubMed, 2 syntheses or guidelines pooled it, 186 citations in OpenAlex.

  1. Pooled it
  2. Pooled it
  3. Trial
  4. Trial
  5. Primary care physician use of patient race and polygenic risk scores in medical decision-making.Genetics in medicine : official journal of the American College of Medical Genetics · 2023
    Trial
  6. Article
  7. Article
  8. Article
  9. Article
  10. Article
  11. Review
  12. Article
  13. Article
  14. Genetic influences on haematopoiesis.Nature reviews. Genetics · 2026
    Review
  15. Article
  16. Review
  17. Genetic susceptibility to respiratory health effects from outdoor air pollution: a structured narrative review.European respiratory review : an official journal of the European Respiratory Society · 2026
    Review
  18. Article
  19. Article
  20. Article

59 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

20 authors at 7 institutions in 1 country.

Limin HaoLaboratory for Molecular Medicine, Mass General Brigham Personalized Medicine, Cambridge, MA, USA.
Peter KraftDepartment of Epidemiology, Harvard T.H. Chan School of Public Health, Boston, MA, USA.ORCID http://orcid.org/0000-0002-4472-8103
Gabriel F BerrizLaboratory for Molecular Medicine, Mass General Brigham Personalized Medicine, Cambridge, MA, USA.
Elizabeth D HynesLaboratory for Molecular Medicine, Mass General Brigham Personalized Medicine, Cambridge, MA, USA.ORCID http://orcid.org/0000-0002-3817-2145
Christopher KochLaboratory for Molecular Medicine, Mass General Brigham Personalized Medicine, Cambridge, MA, USA.
Prathik Korategere V KumarLaboratory for Molecular Medicine, Mass General Brigham Personalized Medicine, Cambridge, MA, USA.
Shruti S ParpattedarLaboratory for Molecular Medicine, Mass General Brigham Personalized Medicine, Cambridge, MA, USA.
Marcie SteevesLaboratory for Molecular Medicine, Mass General Brigham Personalized Medicine, Cambridge, MA, USA.
Wanfeng YuLaboratory for Molecular Medicine, Mass General Brigham Personalized Medicine, Cambridge, MA, USA.
Ashley A AntwiVeterans Affairs Boston Healthcare System, Boston, MA, USA.ORCID http://orcid.org/0000-0002-2591-4410
Charles A BrunetteVeterans Affairs Boston Healthcare System, Boston, MA, USA.ORCID http://orcid.org/0000-0003-1620-3526
Morgan DanowskiVeterans Affairs Boston Healthcare System, Boston, MA, USA.
Manish K GalaDivision of Gastroenterology, Massachusetts General Hospital, Boston, MA, USA.
Robert C GreenHarvard Medical School, Boston, MA, USA.ORCID http://orcid.org/0000-0001-8472-0424
Natalie E JonesVeterans Affairs Boston Healthcare System, Boston, MA, USA.
Anna C F LewisE J Safra Center for Ethics, Harvard University, Cambridge, MA, USA.ORCID http://orcid.org/0000-0002-1274-386X
Steven A LubitzCardiovascular Disease Initiative, Broad Institute of Harvard and the Massachusetts Institute of Technology, Cambridge, MA, USA.ORCID http://orcid.org/0000-0002-9599-4866
Pradeep NatarajanHarvard Medical School, Boston, MA, USA.
Jason L Vassy *Veterans Affairs Boston Healthcare System, Boston, MA, USA. jvassy@bwh.harvard.edu.ORCID http://orcid.org/0000-0001-6113-5564
Matthew S Lebo *Laboratory for Molecular Medicine, Mass General Brigham Personalized Medicine, Cambridge, MA, USA.ORCID http://orcid.org/0000-0002-9733-5207
Mass General Brigham · USBroad Institute · USHarvard University · USVA Boston Healthcare System · USBoston University · USBrigham and Women's Hospital · USMassachusetts General Hospital · US

Funding

The Broad-LMM-Color Genome Center for All of UsOT2OD002750 · OD · BROAD INSTITUTE, INC. · PI GABRIEL, STACEY, REHM, HEIDI L · 2018 to 2023
$264.7M
Resource ProjectU41HG006834 · NHGRI · BRIGHAM AND WOMEN'S HOSPITAL · PI REHM, HEIDI L · 2013 to 2020
$26.9M
Finding Genomic Profiles of COVID-19 Phenotypes from the EHRU01HG008685 · NHGRI · BRIGHAM AND WOMEN'S HOSPITAL · PI ELIZABETH W KARLSON, Matthew S Lebo · 2015 to 2026
$13.6M
Polygenic Risk Scores for Diverse Populations - Bridging Research and Clinical CareR01HL151152 · NHLBI · FRED HUTCHINSON CANCER RESEARCH CENTER · PI Christy Leigh Avery, Jennifer Below · 2020 to 2026
$12.3M
Using genetic variation to study biology of blood lipids & coronary heart diseaseR01HL127564 · NHLBI · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI Pradeep Natarajan, Gina Marie Peloso · 2015 to 2026
$7.3M
Return of Genomic Results and Estimating Penetrance in Population-Based CohortsR01HL143295 · NHLBI · BROAD INSTITUTE, INC. · PI CARSON, APRIL P, GREEN, ROBERT C. · 2019 to 2022
$7.2M
Clonal hematopoiesis in the Womens Health Initiative Memory StudyR01HL148565 · NHLBI · FRED HUTCHINSON CANCER RESEARCH CENTER · PI ALEXANDER P REINER, Eric A. Whitsel · 2019 to 2026
$5.9M
Clonal hematopoiesis in humans: determinants of development and progressionR01HL148050 · NHLBI · BAYLOR COLLEGE OF MEDICINE · PI BALLANTYNE, CHRISTIE MITCHELL, NATARAJAN, PRADEEP · 2019 to 2022
$5.9M
Enabling improved applicability and transferability of polygenic scores across populationsU01HG011719 · NHGRI · MASSACHUSETTS GENERAL HOSPITAL · PI Alicia Martin · 2021 to 2026
$5.5M
Implementation of Whole Genome Sequencing as Screening in a Diverse Cohort of Healthy InfantsU01TR003201 · NCATS · BRIGHAM AND WOMEN'S HOSPITAL · PI GREEN, ROBERT C., HOLM, INGRID ADELE · 2021 to 2024
$5.1M
Whole genome sequences in individuals to comprehensively characterize the genetic mechanisms of dyslipidemiasR01HL142711 · NHLBI · MASSACHUSETTS GENERAL HOSPITAL · PI Satoshi Koyama, Gina Marie Peloso · 2019 to 2026
$4.7M
Integrated pathogenicity assessment of clinically actionable genetic variantsR01HG010372 · NHGRI · BRIGHAM AND WOMEN'S HOSPITAL · PI CASSA, CHRISTOPHER · 2018 to 2022
$3.5M
NCATS NIH HHS U01 TR003201NHGRI NIH HHS R01 HG010372NHGRI NIH HHS R35 HG010706NHGRI NIH HHS U01 HG008685NHGRI NIH HHS U01 HG011719NHGRI NIH HHS U41 HG006834NHLBI NIH HHS R01 HL127564NHLBI NIH HHS R01 HL135242NHLBI NIH HHS R01 HL139731NHLBI NIH HHS R01 HL142711NHLBI NIH HHS R01 HL143295NHLBI NIH HHS R01 HL148050NHLBI NIH HHS R01 HL148565NHLBI NIH HHS R01 HL151152NHLBI NIH HHS R01 HL151283NHLBI NIH HHS R01 HL157635NIDDK NIH HHS R01 DK125782NIH HHS OT2 OD002750
6 · The paper itself

Abstract

Implementation of polygenic risk scores (PRS) may improve disease prevention and management but poses several challenges: the construction of clinically valid assays, interpretation for individual patients, and the development of clinical workflows and resources to support their use in patient care. For the ongoing Veterans Affairs Genomic Medicine at Veterans Affairs (GenoVA) Study we developed a clinical genotype array-based assay for six published PRS. We used data from 36,423 Mass General Brigham Biobank participants and adjustment for population structure to replicate known PRS-disease associations and published PRS thresholds for a disease odds ratio (OR) of 2 (ranging from 1.75 (95% CI: 1.57-1.95) for type 2 diabetes to 2.38 (95% CI: 2.07-2.73) for breast cancer). After confirming the high performance and robustness of the pipeline for use as a clinical assay for individual patients, we analyzed the first 227 prospective samples from the GenoVA Study and found that the frequency of PRS corresponding to published OR > 2 ranged from 13/227 (5.7%) for colorectal cancer to 23/150 (15.3%) for prostate cancer. In addition to the PRS laboratory report, we developed physician- and patient-oriented informational materials to support decision-making about PRS results. Our work illustrates the generalizable development of a clinical PRS assay for multiple conditions and the technical, reporting and clinical workflow challenges for implementing PRS information in the clinic.

Indexed as

Diabetes Mellitus, Type 2Genome-Wide Association StudyGenetic Predisposition to DiseaseHumansMaleProspective StudiesRisk FactorsWorkflow

Identifiers

PMID35437332
PMCPMC9117136
OpenAlexW4223924706

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.