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Chromatin has distinct three-dimensional (3D) architectures important in key biological processes, such as cell cycle, replication, differentiation, and transcription regulation. In turn, aberrant 3D structures play a vital role in developing abnormalities and diseases such as cancer. This review di …

In addition, we will propose our views on how to employ state-of-the-art technologies to decode the unanswered questions in this field. Overall, this article motivates the study of 3D chromatin architecture in cancer, which allows for a better understanding of its pathogenesis and develop novel approaches for diagnosis and treatment of cancer.

The gradual in-depth analysis of 3D cancer genome has enabled us to have a more comprehensive understanding of cancer development. 3D chromatin structures, such as A/B compartments, TADs, and loops, are dynamically linked, and synergistically regulated, which plays important roles in regulating gene expression and cancer development. Changes in ...

This review provides an overview of the roles of 3D chromatin architecture in cancer development and progression with an emphasis on the processes that regulate the phenotypic plasticity of cancer stem cells. We argue that early embryonic development and cancer cell dedifferentiation share similar principles in epigenetic regulation and the ...

Mutational density in cancers may relate to underlying 3D nuclear architecture. Though the details are beyond the scope of the current review, chromatin organization fundamentally intertwines with DNA damage sensing and repair at numerous levels [4].DNA damage sensing involves chromatin annotation with gamma-H2AX, which dictates the activity of subsequent repair pathways in part through a ...

Background : The hierarchical three-dimensional (3D) architectures of chromatin play an important role in fundamental biological processes, such as cell differentiation, cellular senescence, and transcriptional regulation. Aberrant chromatin 3D structural alterations often present in human diseases and even cancers, but their underlying mechanisms remain unclear. </p><p><i>Results</i>: 3D ...

The contribution of deregulated chromatin architecture, including topologically associated domains (TADs), to cancer progression remains ambiguous. CCCTC-binding factor (CTCF) is a central regulator of higher-order chromatin structure that undergoes copy number loss in over half of all breast cancers, but the impact of this defect on epigenetic ...

Chromatin topological organization represents itself as a layer of gene regulation that reflects cells phenotypes, 3, 4 and several examples of chromatin rewiring have been described over the course of development 5 and disease conditions such as cancer. 6, 7 Nuclear constraints shape transcriptional control 8, 9 and vice versa, 10 suggesting that specific conformations may be stabilized and ...

It seems possible to selectively eliminate cancer cells by modulating the activity of particular chromatin architecture proteins like YY1 and BORIS. Moreover, cancer-specific changes in the 3D genome can promote transcriptional addiction of cancer cells (see below) and make them sensitive to various agents targeting high-level transcription of ...

We have examined four major areas of architectural dysregulation in the context of human cancer. These common structural tumor drivers are (1) frequent noncoding mutations at chromatin loop anchors and domain insulators, (2) altered TF binding at sites of chromatin interaction, (3) structural variation resulting in domain redistricting, and (4) mutations in cohesin and metabolic genes, upon ...

As a consequence, many of the better-characterized differences in genome folding arise from structural DNA abnormalities in cancer cells and their effects on 3D nuclear architecture (22, 23). However, it is becoming increasingly recognized that alterations in nuclear organization within tumor cells may also be orchestrated by more dynamic ...

Recent studies have demonstrated that chromatin architecture is linked to the progression of cancers. However, the roles of 3D structure and its dynamics in hormone-dependent breast cancer and ...

Chromatin looping is a key layer of 3D chromatin architecture that brings distal regulatory elements such as enhancers into proximity with promoters of target genes and has been shown to be linked to Tam resistance in breast cancer cell lines. 13, 25 To identify looping events in tumor tissues and tumor-specific looping genes, we first used ...

3D chromatin architecture in cancer treatment [12], 11, underlining opportunities for exploring therapeutical agents targeting 3D chromatin architectures. is review summarises new aspects of dierent 3D chromatin archi - tectures and their implications in cancer (Figs. 2, 3). We also highlight the advances in studying 3D chromatin

“This study shows that the 3D organization of DNA inside tumor cells plays a powerful role in driving brain cancer behavior – sometimes even more than mutations themselves,” said Dr. Howard Fine, the Louis and Gertrude Feil Professor of Medicine in Neurology at Weill Cornell Medicine and director of the Brain Tumor Center at NewYork ...

As a result, screening for 3D chromatin regulators has been particularly challenging. To address this, ... such as cancer 10. Therefore, cost-efficient high throughput perturbation combined with ...

Cancer development and progression are demarcated by transcriptional dysregulation. In this article, we explore the epigenetic mechanisms shaping gene expression during tumorigenesis and cancer stem cell formation, with an emphasis on 3D chromatin architecture.

Recent work showed how chromatin composition can be inherited through DNA replication , but how this is reflected in the 3D architecture of chromosomal loci is unknown and requires improvement in current technologies. Moreover, approaches that provide precise information on cell cycle stage could uncover whether architectural differences ...

Cancer progression involves genetic and epigenetic changes that disrupt chromatin 3D organization, affecting enhancer-promoter interactions and promoting growth. Here, we provide an integrative approach, combining chromatin conformation, accessibility, and transcription analysis, validated by in sil …