The expanding diagnostic toolbox for rare genetic diseases

KD Kernohan, KM Boycott - Nature Reviews Genetics, 2024 - nature.com
Genomic technologies, such as targeted, exome and short-read genome sequencing
approaches, have revolutionized the care of patients with rare genetic diseases. However …

Will variants of uncertain significance still exist in 2030?

DM Fowler, HL Rehm - The American Journal of Human Genetics, 2024 - cell.com
Summary In 2020, the National Human Genome Research Institute (NHGRI) made ten" bold
predictions," including that" the clinical relevance of all encountered genomic variants will be …

Advancing variant effect prediction using protein language models

BJ Livesey, JA Marsh - Nature Genetics, 2023 - nature.com
Advancing variant effect prediction using protein language models | Nature Genetics Skip to main
content Thank you for visiting nature.com. You are using a browser version with limited support …

Predicting pathogenic protein variants

JA Marsh, SA Teichmann - Science, 2023 - science.org
Many of the genetic mutations that cause disease in humans occur in protein-coding
regions. Although the capacity to sequence DNA and identify these variants has …

Predicting RNA-seq coverage from DNA sequence as a unifying model of gene regulation

J Linder, D Srivastava, H Yuan, V Agarwal, DR Kelley - Biorxiv, 2023 - biorxiv.org
Sequence-based machine learning models trained on genome-scale biochemical assays
improve our ability to interpret genetic variants by providing functional predictions describing …

Ensembl 2024

PW Harrison, MR Amode… - Nucleic acids …, 2024 - academic.oup.com
Abstract Ensembl (https://www. ensembl. org) is a freely available genomic resource that has
produced high-quality annotations, tools, and services for vertebrates and model organisms …

Deep mutational scanning quantifies DNA binding and predicts clinical outcomes of PAX6 variants

AF McDonnell, M Plech, BJ Livesey… - Molecular Systems …, 2024 - embopress.org
Nonsense and missense mutations in the transcription factor PAX6 cause a wide range of
eye development defects, including aniridia, microphthalmia and coloboma. To understand …

High-throughput assays to assess variant effects on disease

K Ma, LO Gauthier, F Cheung… - Disease Models & …, 2024 - journals.biologists.com
Interpreting the wealth of rare genetic variants discovered in population-scale sequencing
efforts and deciphering their associations with human health and disease present a critical …

Functional studies of deafness-associated pendrin and prestin variants

S Takahashi, T Kojima, K Wasano… - International Journal of …, 2024 - mdpi.com
Pendrin and prestin are evolutionary-conserved membrane proteins that are essential for
normal hearing. Dysfunction of these proteins results in hearing loss in humans, and …

Alignment-based protein mutational landscape prediction: doing more with less

M Abakarova, C Marquet, M Rera… - Genome Biology and …, 2023 - academic.oup.com
The wealth of genomic data has boosted the development of computational methods
predicting the phenotypic outcomes of missense variants. The most accurate ones exploit …