Integration of protein structure and population-scale DNA sequence data for disease gene discovery and variant interpretation

B Li, B **, JA Capra, WS Bush - Annual Review of Biomedical …, 2022 - annualreviews.org
The experimental and computational techniques for capturing information about protein
structures and genetic variation within the human genome have advanced dramatically in …

Statistical methods for assessing the effects of de novo variants on birth defects

Y **e, R Wu, H Li, W Dong, G Zhou, H Zhao - Human Genomics, 2024 - Springer
With the development of next-generation sequencing technology, de novo variants (DNVs)
with deleterious effects can be identified and investigated for their effects on birth defects …

Snai2‐mediated upregulation of NADSYN1 promotes bladder cancer progression by interacting with PHB

LJ Jiang, SB Guo, ZH Zhou, ZY Li… - Clinical and …, 2024 - pmc.ncbi.nlm.nih.gov
Dear Editor, Bladder cancer is recognised as the 10th most prevalent cancer worldwide, with
men having a lifetime risk of 1.1% and women. 27%. 1, 2 The epithelial-to-mesenchymal …

[HTML][HTML] Missense variants reveal functional insights into the human ARID family of gene regulators

G Deák, AG Cook - Journal of Molecular Biology, 2022 - Elsevier
Missense variants are alterations to protein coding sequences that result in amino acid
substitutions. They can be deleterious if the amino acid is required for maintaining structure …

Excalibur: A new ensemble method based on an optimal combination of aggregation tests for rare-variant association testing for sequencing data

S Boutry, R Helaers, T Lenaerts… - PLoS computational …, 2023 - journals.plos.org
The development of high-throughput next-generation sequencing technologies and large-
scale genetic association studies produced numerous advances in the biostatistics field …

Delineation of functionally essential protein regions for 242 neurodevelopmental genes

S Iqbal, T Brünger, E Pérez-Palma, M Macnee… - Brain, 2023 - academic.oup.com
Neurodevelopmental disorders (NDDs), including severe paediatric epilepsy, autism and
intellectual disabilities are heterogeneous conditions in which clinical genetic testing can …

An association test of the spatial distribution of rare missense variants within protein structures identifies Alzheimer's disease–related patterns

B **, JA Capra, P Benchek, N Wheeler… - Genome …, 2022 - genome.cshlp.org
More than 90% of genetic variants are rare in most modern sequencing studies, such as the
Alzheimer's Disease Sequencing Project (ADSP) whole-exome sequencing (WES) data …

Pharmacogenomic and Statistical Analysis

H Bai, X Zhang, WS Bush - Statistical Genomics, 2023 - Springer
Genetic variants can alter response to drugs and other therapeutic interventions. The study
of this phenomenon, called pharmacogenomics, is similar in many ways to other types of …

An association test of the spatial distribution of rare missense variants within protein structures improves statistical power of sequencing studies

B **, JA Capra, P Benchek, N Wheeler, AC Naj… - bioRxiv, 2021 - biorxiv.org
Over 90% of variants are rare, and 50% of them are singletons in the Alzheimer's Disease
Sequencing Project Whole Exome Sequencing (ADSP WES) data. However, either single …

Using 3D protein models to uncover genetic risk in ALS

J Hermens - 2024 - studenttheses.uu.nl
Amyotrophic Lateral Sclerosis (ALS) is a fatal neurodegenerative disease that is
characterized by the involvement of rare genetic variants. Disease association of single rare …