Using the ACMG/AMP framework to capture evidence related to predicted and observed impact on splicing: Recommendations from the ClinGen SVI Splicing …

LC Walker, M de la Hoya, GAR Wiggins, A Lindy… - The American Journal of …, 2023 - cell.com
Summary The American College of Medical Genetics and Genomics (ACMG)/Association for
Molecular Pathology (AMP) framework for classifying variants uses six evidence categories …

SPiP: Splicing Prediction Pipeline, a machine learning tool for massive detection of exonic and intronic variant effects on mRNA splicing

R Leman, B Parfait, D Vidaud, E Girodon… - Human …, 2022 - Wiley Online Library
Modeling splicing is essential for tackling the challenge of variant interpretation as each
nucleotide variation can be pathogenic by affecting pre‐mRNA splicing via …

Assessment of diagnostic outcomes of RNA genetic testing for hereditary cancer

R Karam, B Conner, H LaDuca, K McGoldrick… - JAMA Network …, 2019 - jamanetwork.com
Importance Performing DNA genetic testing (DGT) for hereditary cancer genes is now a well-
accepted clinical practice; however, the interpretation of DNA variation remains a challenge …

BRCA1—no matter how you splice it

D Li, LM Harlan-Williams, E Kumaraswamy, RA Jensen - Cancer research, 2019 - AACR
Abstract BRCA1 (breast cancer 1, early onset), a well-known breast cancer susceptibility
gene, is a highly alternatively spliced gene. BRCA1 alternative splicing may serve as an …

[HTML][HTML] Spectrum and genotyping strategies of “dark” genetic matter in germline susceptibility genes of tumour syndromes

A Bozsik, H Butz, VK Grolmusz, T Pócza… - Critical Reviews in …, 2024 - Elsevier
Purpose Despite the widespread use of high-throughput genotyping strategies, certain
mutation types remain understudied. We provide an overview of these often overlooked …

Splicing predictions, minigene analyses, and ACMG‐AMP clinical classification of 42 germline PALB2 splice‐site variants

A Valenzuela‐Palomo, E Bueno‐Martínez… - The Journal of …, 2022 - Wiley Online Library
PALB2 loss‐of‐function variants confer high risk of developing breast cancer. Here we
present a systematic functional analysis of PALB2 splice‐site variants detected in …

Assessment of branch point prediction tools to predict physiological branch points and their alteration by variants

R Leman, H Tubeuf, S Raad, I Tournier, C Derambure… - BMC genomics, 2020 - Springer
Abstract Background Branch points (BPs) map within short motifs upstream of acceptor
splice sites (3'ss) and are essential for splicing of pre-mature mRNA. Several BP-dedicated …

Systematic Minigene-Based Splicing Analysis and Tentative Clinical Classification of 52 CHEK2 Splice-Site Variants

L Sanoguera-Miralles, A Valenzuela-Palomo… - Clinical …, 2024 - academic.oup.com
Background Disrupted pre-mRNA splicing is a frequent deleterious mechanism in hereditary
cancer. We aimed to functionally analyze candidate spliceogenic variants of the breast …

Mutational and splicing landscape in a cohort of 43,000 patients tested for hereditary cancer

C Horton, A Cass, BR Conner, L Hoang… - npj Genomic …, 2022 - nature.com
DNA germline genetic testing can identify individuals with cancer susceptibility. However,
DNA sequencing alone is limited in its detection and classification of mRNA splicing …

Overview of the genetic causes of hereditary breast and ovarian cancer syndrome in a large French patient cohort

A Bouras, S Guidara, M Leone, A Buisson… - Cancers, 2023 - mdpi.com
Simple Summary Hereditary Breast and Ovarian Cancer syndrome (HBOC) is an inherited
trait that predisposes adults to an earlier onset of cancer than the general population. HBOC …