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 relationship between genome structure and function

AM Oudelaar, DR Higgs - Nature Reviews Genetics, 2021 - nature.com
Precise patterns of gene expression in metazoans are controlled by three classes of
regulatory elements: promoters, enhancers and boundary elements. During differentiation …

CTCF-mediated chromatin looping provides a topological framework for the formation of phase-separated transcriptional condensates

R Lee, MK Kang, YJ Kim, B Yang, H Shim… - Nucleic acids …, 2022 - academic.oup.com
CTCF is crucial to the organization of mammalian genomes into loop structures. According
to recent studies, the transcription apparatus is compartmentalized and concentrated at …

Static and dynamic DNA loops form AP-1-bound activation hubs during macrophage development

DH Phanstiel, K Van Bortle, D Spacek, GT Hess… - Molecular cell, 2017 - cell.com
The three-dimensional arrangement of the human genome comprises a complex network of
structural and regulatory chromatin loops important for coordinating changes in transcription …

The Mediator complex regulates enhancer-promoter interactions

S Ramasamy, A Aljahani, MA Karpinska… - Nature Structural & …, 2023 - nature.com
Enhancer-mediated gene activation generally requires physical proximity between
enhancers and their target gene promoters. However, the molecular mechanisms by which …

GATA transcription factors in development and disease

M Tremblay, O Sanchez-Ferras, M Bouchard - Development, 2018 - journals.biologists.com
The GATA family of transcription factors is of crucial importance during embryonic
development, playing complex and widespread roles in cell fate decisions and tissue …

Enhancer function: mechanistic and genome-wide insights come together

JL Plank, A Dean - Molecular cell, 2014 - cell.com
Enhancers establish spatial or temporal patterns of gene expression that are critical for
development, yet our understanding of how these DNA cis-regulatory elements function from …

ZNF143 provides sequence specificity to secure chromatin interactions at gene promoters

SD Bailey, X Zhang, K Desai, M Aid, O Corradin… - Nature …, 2015 - nature.com
Chromatin interactions connect distal regulatory elements to target gene promoters guiding
stimulus-and lineage-specific transcription. Few factors securing chromatin interactions have …

The impact of proinflammatory cytokines on the β-cell regulatory landscape provides insights into the genetics of type 1 diabetes

M Ramos-Rodríguez, H Raurell-Vila, ML Colli… - Nature …, 2019 - nature.com
The early stages of type 1 diabetes (T1D) are characterized by local autoimmune
inflammation and progressive loss of insulin-producing pancreatic β cells. Here we show …

Chromatin signatures of cancer

MA Morgan, A Shilatifard - Genes & development, 2015 - genesdev.cshlp.org
Changes in the pattern of gene expression play an important role in allowing cancer cells to
acquire their hallmark characteristics, while genomic instability enables cells to acquire …