The role of 3D genome organization in development and cell differentiation
In eukaryotes, the genome does not exist as a linear molecule but instead is hierarchically
packaged inside the nucleus. This complex genome organization includes multiscale …
packaged inside the nucleus. This complex genome organization includes multiscale …
Transcription factors and 3D genome conformation in cell-fate decisions
How cells adopt different identities has long fascinated biologists. Signal transduction in
response to environmental cues results in the activation of transcription factors that …
response to environmental cues results in the activation of transcription factors that …
Single-cell transcriptional diversity is a hallmark of developmental potential
GS Gulati, SS Sikandar, DJ Wesche, A Manjunath… - Science, 2020 - science.org
Single-cell RNA sequencing (scRNA-seq) is a powerful approach for reconstructing cellular
differentiation trajectories. However, inferring both the state and direction of differentiation is …
differentiation trajectories. However, inferring both the state and direction of differentiation is …
[HTML][HTML] RNA interactions are essential for CTCF-mediated genome organization
R Saldaña-Meyer, J Rodriguez-Hernaez, T Escobar… - Molecular cell, 2019 - cell.com
The function of the CCCTC-binding factor (CTCF) in the organization of the genome has
become an important area of investigation, but the mechanisms by which CTCF dynamically …
become an important area of investigation, but the mechanisms by which CTCF dynamically …
[HTML][HTML] Distinct classes of chromatin loops revealed by deletion of an RNA-binding region in CTCF
Mammalian genomes are folded into topologically associating domains (TADs), consisting
of chromatin loops anchored by CTCF and cohesin. Some loops are cell-type specific. Here …
of chromatin loops anchored by CTCF and cohesin. Some loops are cell-type specific. Here …
CTCF shapes chromatin structure and gene expression in health and disease
B Dehingia, M Milewska, M Janowski, A Pękowska - EMBO reports, 2022 - embopress.org
CCCTC‐binding factor (CTCF) is an eleven zinc finger (ZF), multivalent transcriptional
regulator, that recognizes numerous motifs thanks to the deployment of distinct combinations …
regulator, that recognizes numerous motifs thanks to the deployment of distinct combinations …
Evaluating enhancer function and transcription
Cell-type-and condition-specific profiles of gene expression require coordination between
protein-coding gene promoters and cis-regulatory sequences called enhancers. Enhancers …
protein-coding gene promoters and cis-regulatory sequences called enhancers. Enhancers …
[HTML][HTML] The ChAHP complex counteracts chromatin looping at CTCF sites that emerged from SINE expansions in mouse
CCCTC-binding factor (CTCF) and cohesin are key players in three-dimensional chromatin
organization. The topologically associating domains (TADs) demarcated by CTCF are …
organization. The topologically associating domains (TADs) demarcated by CTCF are …
[HTML][HTML] Regulation of CTCF loop formation during pancreatic cell differentiation
Transcription reprogramming during cell differentiation involves targeting enhancers to
genes responsible for establishment of cell fates. To understand the contribution of CTCF …
genes responsible for establishment of cell fates. To understand the contribution of CTCF …
DNA architectural protein CTCF facilitates subset-specific chromatin interactions to limit the formation of memory CD8+ T cells
Although the importance of genome organization for transcriptional regulation of cell-fate
decisions and function is clear, the changes in chromatin architecture and how these impact …
decisions and function is clear, the changes in chromatin architecture and how these impact …