Publication Date
1-1-2025
Journal
Genetics in Medicine Open
DOI
10.1016/j.gimo.2024.101914
PMID
39902189
PMCID
PMC11788803
PubMedCentral® Posted Date
12-10-2024
PubMedCentral® Full Text Version
Post-print
Abstract
Purpose: Although up to 25% of germline variants are predicted to affect splicing, most are classified as variants of uncertain significance (VUS) because of the limited understanding of their functional consequences. Here, we investigated the impact of RNA sequencing (RNA-seq) data on the ability to resolve splicing-related VUS.
Methods: Patients with VUS predicted to alter splicing identified through commercial hereditary cancer testing between October 2021 to July 2023 were included. RNA-seq was used to compare splicing patterns between patient blood samples and normal controls. VUS reclassification rates were calculated.
Results: In total, 411 VUS in 52 genes predicted to affect splicing were included. RNA-seq results resolved 26.3% (108/411) of the VUS: 28 (6.8%) upgraded to pathogenic/likely pathogenic, and 80 (19.5%) downgraded to not reportable. Among the 28 upgraded, 17 (60.7%) were intronic, 9 (32.1%) were exonic missense variants, and 2 (7.1%) were exonic synonymous variants. Most of the VUS downgraded to not reportable were intronic (64/80, 80%). The remaining 16 (20%) of the downgraded VUS were synonymous variants.
Conclusion: This study underscores the utility of RNA-seq to detect variants that affect splicing and could have an impact on cancer risk assessment management and treatment.
Keywords
Hereditary cancer, Pathogenic variants, RNA sequencing, Variants of uncertain significance
Published Open-Access
yes
Recommended Citation
Sha, Youbao; Ortiz, J Bryce; Bristow, Sara L; et al., "Refining the Interpretation of Variants of Uncertain Significance in Hereditary Cancer Screening Through Integrated RNA Sequencing" (2025). Faculty and Staff Publications. 5177.
https://digitalcommons.library.tmc.edu/baylor_docs/5177
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