Linking genome variants to disease: scalable approaches to test the functional impact of human mutations

GM Findlay - Human molecular genetics, 2021 - academic.oup.com
The application of genomics to medicine has accelerated the discovery of mutations
underlying disease and has enhanced our knowledge of the molecular underpinnings of …

Variant effect on splicing regulatory elements, branchpoint usage, and pseudoexonization: Strategies to enhance bioinformatic prediction using hereditary cancer …

D Canson, D Glubb, AB Spurdle - Human Mutation, 2020 - Wiley Online Library
It is possible to estimate the prior probability of pathogenicity for germline disease gene
variants based on bioinformatic prediction of variant effect/s. However, routinely used …

Splicing profile by capture RNA-seq identifies pathogenic germline variants in tumor suppressor genes

T Landrith, B Li, AA Cass, BR Conner, H LaDuca… - NPJ precision …, 2020 - nature.com
Germline variants in tumor suppressor genes (TSGs) can result in RNA mis-splicing and
predisposition to cancer. However, identification of variants that impact splicing remains a …

Comparison of in silico strategies to prioritize rare genomic variants impacting RNA splicing for the diagnosis of genomic disorders

C Rowlands, HB Thomas, J Lord, HA Wai, G Arno… - Scientific Reports, 2021 - nature.com
The development of computational methods to assess pathogenicity of pre-messenger RNA
splicing variants is critical for diagnosis of human disease. We assessed the capability of …

Intronic Germline DICER1 Variants in Patients With Sertoli-Leydig Cell Tumor

CR Fraire, PR Mallinger, JN Hatton, J Kim… - JCO precision …, 2023 - ascopubs.org
Germline pathogenic loss-of-function (pLOF) variants in DICER1 are associated with a
predisposition for a variety of solid neoplasms, including pleuropulmonary blastoma and …

Alternative mRNA splicing can attenuate the pathogenicity of presumed loss-of-function variants in BRCA2

RLS Mesman, FMGR Calléja, M de la Hoya… - Genetics in …, 2020 - nature.com
Purpose Current interpretation guidelines for germline variants in high-risk cancer
susceptibility genes consider predicted loss-of-function (LoF) variants, such as nonsense …

[HTML][HTML] Allele-specific expression: applications in cancer and technical considerations

CD Robles-Espinoza, P Mohammadi, X Bonilla… - Current opinion in …, 2021 - Elsevier
Allele-specific gene expression can influence disease traits. Non-coding germline genetic
variants that alter regulatory elements can cause allele-specific gene expression and …

Prevalence of germline pathogenic BRCA1/2 variants in sequential epithelial ovarian cancer cases

RD Morgan, GJ Burghel, N Flaum, M Bulman… - Journal of medical …, 2019 - jmg.bmj.com
Introduction Poly (ADP-ribose) polymerase inhibitors significantly improve progression-free
survival in platinum-sensitive high-grade serous and endometrioid ovarian carcinoma, with …

Analysis of pathogenic pseudoexons reveals novel mechanisms driving cryptic splicing

NP Keegan, SD Wilton, S Fletcher - Frontiers in genetics, 2022 - frontiersin.org
Understanding pre-mRNA splicing is crucial to accurately diagnosing and treating genetic
diseases. However, mutations that alter splicing can exert highly diverse effects. Of all the …

Transcriptome analysis provides critical answers to the “variants of uncertain significance” conundrum

MD Postel, JO Culver, C Ricker, DW Craig - Human mutation, 2022 - Wiley Online Library
While whole‐genome and exome sequencing have transformed our collective
understanding of genetics' role in disease pathogenesis, there are certain conditions and …