Mechanisms of enhancer action: the known and the unknown

A Panigrahi, BW O'Malley - Genome biology, 2021 - Springer
Differential gene expression mechanisms ensure cellular differentiation and plasticity to
shape ontogenetic and phylogenetic diversity of cell types. A key regulator of differential …

The genetics of intellectual disability

S Jansen, LELM Vissers, BBA de Vries - Brain Sciences, 2023 - mdpi.com
Intellectual disability (ID) has a prevalence of~ 2–3% in the general population, having a
large societal impact. The underlying cause of ID is largely of genetic origin; however …

Repression and 3D-restructuring resolves regulatory conflicts in evolutionarily rearranged genomes

AR Ringel, Q Szabo, AM Chiariello, K Chudzik… - Cell, 2022 - cell.com
Regulatory landscapes drive complex developmental gene expression, but it remains
unclear how their integrity is maintained when incorporating novel genes and functions …

Integration of Hi-C with short and long-read genome sequencing reveals the structure of germline rearranged genomes

R Schöpflin, US Melo, H Moeinzadeh, D Heller… - Nature …, 2022 - nature.com
Structural variants are a common cause of disease and contribute to a large extent to inter-
individual variability, but their detection and interpretation remain a challenge. Here, we …

Near-gapless and haplotype-resolved apple genomes provide insights into the genetic basis of rootstock-induced dwarfing

W Li, C Chu, H Li, H Zhang, H Sun, S Wang, Z Wang… - Nature Genetics, 2024 - nature.com
Dwarfing rootstocks have transformed the production of cultivated apples; however, the
genetic basis of rootstock-induced dwarfing remains largely unclear. We have assembled …

[HTML][HTML] Structural variants create new topological-associated domains and ectopic retinal enhancer-gene contact in dominant retinitis pigmentosa

SE de Bruijn, A Fiorentino, D Ottaviani… - The American Journal of …, 2020 - cell.com
The cause of autosomal-dominant retinitis pigmentosa (adRP), which leads to loss of vision
and blindness, was investigated in families lacking a molecular diagnosis. A refined locus …

Diagnostic yield of whole genome sequencing after nondiagnostic exome sequencing or gene panel in developmental and epileptic encephalopathies

EE Palmer, R Sachdev, R Macintosh, US Melo… - Neurology, 2021 - AAN Enterprises
Objective To assess the benefits and limitations of whole genome sequencing (WGS)
compared to exome sequencing (ES) or multigene panel (MGP) in the molecular diagnosis …

Solving the unsolved genetic epilepsies: Current and future perspectives

KM Johannesen, Z Tümer, S Weckhuysen… - …, 2023 - Wiley Online Library
Many patients with epilepsy undergo exome or genome sequencing as part of a diagnostic
workup; however, many remain genetically unsolved. There are various factors that account …

TAD evolutionary and functional characterization reveals diversity in mammalian TAD boundary properties and function

M Okhovat, J VanCampen, KA Nevonen… - Nature …, 2023 - nature.com
Topological associating domains (TADs) are self-interacting genomic units crucial for
shaping gene regulation patterns. Despite their importance, the extent of their evolutionary …

Transcriptional enhancers and their communication with gene promoters

H Ray-Jones, M Spivakov - Cellular and Molecular Life Sciences, 2021 - Springer
Transcriptional enhancers play a key role in the initiation and maintenance of gene
expression programmes, particularly in metazoa. How these elements control their target …