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3-D chromatin conformation, accessibility, and gene expression profiling of triple-negative breast cancer
ObjectivesTriple-negative breast cancer (TNBC) is a highly aggressive breast cancer subtype with limited treatment options. Unlike other breast...
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Expanding the list of sequence-agnostic enzymes for chromatin conformation capture assays with S1 nuclease
This study presents a novel approach for map** global chromatin interactions using S1 nuclease, a sequence-agnostic enzyme. We develop and outline...
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HOXD3 promotes the migration and angiogenesis of hepatocellular carcinoma via modifying hepatocellular carcinoma cells exosome-delivered CCR6 and regulating chromatin conformation of CCL20
Angiogenesis plays an essential role in the microenvironment of hepatocellular carcinoma (HCC). HOXD3 is involved in the metastasis and invasion of...
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Chromosome Conformation Capture for Large Genomes
The gigantic 32Gb Axolotl genome inspires fascinating questions such as: how such a big genome is organized and packed in nuclei and how regulation...
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Subtelomeric Chromatin Structure by Chromosome Conformation Capture (3C)-qPCR Methodology in Candida glabrata
Chromatin architecture has an enormous impact on gene regulation, DNA replication, repair, and packaging. Chromatin is organized in a complex...
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Exploration and Visualization Methods for Chromatin Interaction Data
The novelty and sophistication of biological data present numerous challenges for data analysis. Among these challenges is the basic issue of how to...
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Bacon: a comprehensive computational benchmarking framework for evaluating targeted chromatin conformation capture-specific methodologies
Chromatin conformation capture (3C)-based technologies have enabled the accurate detection of topological genomic interactions, and the adoption of...
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Global early replication disrupts gene expression and chromatin conformation in a single cell cycle
BackgroundThe early embryonic divisions of many organisms, including fish, flies, and frogs, are characterized by a very rapid S-phase caused by high...
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Interrogating Global Chromatin Interaction Network by High-Throughput Chromosome Conformation Capture (Hi-C) in Plants
High-throughput chromosome conformation capture (Hi-C) enables the global quantification of chromatin interaction frequency in eukaryotic nuclei....
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Genome-wide chromatin interaction map for Trypanosoma cruzi
Trypanosomes are eukaryotic, unicellular parasites, such as Trypanosoma brucei , which causes slee** sickness, and Trypanosoma cruzi , which causes...
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Chromosomal Interaction in Chromatin Organization
Genes are arranged linearly in long DNA strands. Genomic DNA must be packaged tightly to be contained in the nucleus. Studies have shown that...
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Live-cell imaging of chromatin contacts opens a new window into chromatin dynamics
Our understanding of the organization of the chromatin fiber within the cell nucleus has made great progress in the last few years. High-resolution...
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Dynamic 3D genome reorganization during senescence: defining cell states through chromatin
Cellular senescence, a cell state characterized by growth arrest and insensitivity to growth stimulatory hormones, is accompanied by a massive change...
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Simultaneous profiling of chromatin architecture and transcription in single cells
The three-dimensional structure of chromatin plays a crucial role in development and disease, both of which are associated with transcriptional...
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4C-Seq: Interrogating Chromatin Loo** with Circular Chromosome Conformation Capture
Chromosome conformation capture and its variants have allowed chromatin topology to be interrogated at a superior resolution and throughput than by...
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Vertebrate centromere architecture: from chromatin threads to functional structures
Centromeres are chromatin structures specialized in sister chromatid cohesion, kinetochore assembly, and microtubule attachment during chromosome...
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Determining chromatin architecture with Micro Capture-C
Micro Capture-C (MCC) is a chromatin conformation capture (3C) method for visualizing reproducible three-dimensional contacts of specified regions of...
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Quantitative Chromosome Conformation Capture (3C-qPCR)
Many population-based methods investigating chromatin dynamics and organization in eukaryotes are based on the chromosome conformation capture (3C)...
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Molecular basis of chromatin remodelling by DDM1 involved in plant DNA methylation
Eukaryotic gene regulation occurs at the chromatin level, which requires changing the chromatin structure by a group of ATP-dependent DNA...
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The Nodewalk assay to quantitate chromatin fiber interactomes in very small cell populations
The chromosome conformation capture method and its derivatives, such as circularized chromosome conformation capture, carbon copy chromosome...
