Histone post-translational modifications—cause and consequence of genome function

G Millán-Zambrano, A Burton, AJ Bannister… - Nature Reviews …, 2022 - nature.com
Much has been learned since the early 1960s about histone post-translational modifications
(PTMs) and how they affect DNA-templated processes at the molecular level. This …

Gene regulatory network inference in the era of single-cell multi-omics

P Badia-i-Mompel, L Wessels, S Müller-Dott… - Nature Reviews …, 2023 - nature.com
The interplay between chromatin, transcription factors and genes generates complex
regulatory circuits that can be represented as gene regulatory networks (GRNs). The study …

YaHS: yet another Hi-C scaffolding tool

C Zhou, SA McCarthy, R Durbin - Bioinformatics, 2023 - academic.oup.com
We present YaHS, a user-friendly command-line tool for the construction of chromosome-
scale scaffolds from Hi-C data. It can be run with a single-line command, requires minimal …

[HTML][HTML] Loss of epigenetic information as a cause of mammalian aging

JH Yang, M Hayano, PT Griffin, JA Amorim… - Cell, 2023 - cell.com
All living things experience an increase in entropy, manifested as a loss of genetic and
epigenetic information. In yeast, epigenetic information is lost over time due to the …

Expanded encyclopaedias of DNA elements in the human and mouse genomes

JE Moore, MJ Purcaro, HE Pratt, CB Epstein… - Nature, 2020 - nature.com
The human and mouse genomes contain instructions that specify RNAs and proteins and
govern the timing, magnitude, and cellular context of their production. To better delineate …

Towards complete and error-free genome assemblies of all vertebrate species

A Rhie, SA McCarthy, O Fedrigo, J Damas, G Formenti… - Nature, 2021 - nature.com
High-quality and complete reference genome assemblies are fundamental for the
application of genomics to biology, disease, and biodiversity conservation. However, such …

Shifting the limits in wheat research and breeding using a fully annotated reference genome

International Wheat Genome Sequencing Consortium … - Science, 2018 - science.org
INTRODUCTION Wheat (Triticum aestivum L.) is the most widely cultivated crop on Earth,
contributing about a fifth of the total calories consumed by humans. Consequently, wheat …

Establishment of H3K9-methylated heterochromatin and its functions in tissue differentiation and maintenance

J Padeken, SP Methot, SM Gasser - Nature Reviews Molecular Cell …, 2022 - nature.com
Heterochromatin is characterized by dimethylated or trimethylated histone H3 Lys9
(H3K9me2 or H3K9me3, respectively) and is found at transposable elements, satellite …

A framework for understanding the functions of biomolecular condensates across scales

AS Lyon, WB Peeples, MK Rosen - Nature Reviews Molecular Cell …, 2021 - nature.com
Biomolecular condensates are found throughout eukaryotic cells, including in the nucleus, in
the cytoplasm and on membranes. They are also implicated in a wide range of cellular …

Epigenetic regulation of aging: implications for interventions of aging and diseases

K Wang, H Liu, Q Hu, L Wang, J Liu, Z Zheng… - Signal transduction and …, 2022 - nature.com
Aging is accompanied by the decline of organismal functions and a series of prominent
hallmarks, including genetic and epigenetic alterations. These aging-associated epigenetic …