The Gene Curation Coalition: a global effort to harmonize gene-disease evidence resources
File(s)Supplementary Materials.docx (3.05 MB) DiStefano et al_GenCC marker paper.docx (5.46 MB)
Supporting information
Accepted version
Author(s)
Type
Journal Article
Abstract
Purpose:
Several groups and resources provide information that pertains to the validity of gene–disease relationships used in genomic medicine and research; however, universal standards and terminologies to define the evidence base for the role of a gene in disease and a single harmonized resource were lacking. To tackle this issue, the Gene Curation Coalition (GenCC) was formed.
Methods:
The GenCC drafted harmonized definitions for differing levels of gene–disease validity on the basis of existing resources, and performed a modified Delphi survey with 3 rounds to narrow the list of terms. The GenCC also developed a unified database to display curated gene–disease validity assertions from its members.
Results:
On the basis of 241 survey responses from the genetics community, a consensus term set was chosen for grading gene–disease validity and database submissions. As of December 2021, the database contained 15,241 gene–disease assertions on 4569 unique genes from 12 submitters. When comparing submissions to the database from distinct sources, conflicts in assertions of gene–disease validity ranged from 5.3% to 13.4%.
Conclusion:
Terminology standardization, sharing of gene–disease validity classifications, and resolution of curation conflicts will facilitate collaborations across international curation efforts and in turn, improve consistency in genetic testing and variant interpretation.
Several groups and resources provide information that pertains to the validity of gene–disease relationships used in genomic medicine and research; however, universal standards and terminologies to define the evidence base for the role of a gene in disease and a single harmonized resource were lacking. To tackle this issue, the Gene Curation Coalition (GenCC) was formed.
Methods:
The GenCC drafted harmonized definitions for differing levels of gene–disease validity on the basis of existing resources, and performed a modified Delphi survey with 3 rounds to narrow the list of terms. The GenCC also developed a unified database to display curated gene–disease validity assertions from its members.
Results:
On the basis of 241 survey responses from the genetics community, a consensus term set was chosen for grading gene–disease validity and database submissions. As of December 2021, the database contained 15,241 gene–disease assertions on 4569 unique genes from 12 submitters. When comparing submissions to the database from distinct sources, conflicts in assertions of gene–disease validity ranged from 5.3% to 13.4%.
Conclusion:
Terminology standardization, sharing of gene–disease validity classifications, and resolution of curation conflicts will facilitate collaborations across international curation efforts and in turn, improve consistency in genetic testing and variant interpretation.
Date Issued
2022-08
Date Acceptance
2022-04-07
Citation
Genetics in Medicine, 2022, 24 (8), pp.1732-1742
ISSN
1098-3600
Publisher
American College of Medical Genetics and Genomics
Start Page
1732
End Page
1742
Journal / Book Title
Genetics in Medicine
Volume
24
Issue
8
Copyright Statement
© 2022 by American College of Medical Genetics and Genomics. Published by Elsevier Inc. This manuscript is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International Licence http://creativecommons.org/licenses/by-nc-nd/4.0/
Sponsor
Wellcome Trust
British Heart Foundation
Wellcome Trust
Identifier
https://www.sciencedirect.com/science/article/pii/S1098360022007468?via%3Dihub
Grant Number
107469/Z/15/Z
RE/18/4/34215
200990/A/16/Z
Subjects
Database
GenCC
Gene curation
Genetic diagnosis
The Gene Curation Coalition
Databases, Genetic
Genetic Testing
Genetic Variation
Genomics
Humans
Humans
Genomics
Databases, Genetic
Genetic Variation
Genetic Testing
0604 Genetics
1103 Clinical Sciences
Genetics & Heredity
Publication Status
Published
Date Publish Online
2022-05-04