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Related Concept Videos

Genomics02:02

Genomics

Genomics is the science of genomes: it is the study of all the genetic material of an organism. In humans, the genome consists of information carried in 23 pairs of chromosomes in the nucleus, as well as mitochondrial DNA. In genomics, both coding and non-coding DNA is sequenced and analyzed. Genomics allows a better understanding of all living things, their evolution, and their diversity. It has a myriad of uses: for example, to build phylogenetic trees, to improve productivity and...
Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...
Gene Duplication and Divergence02:37

Gene Duplication and Divergence

The seminal work of Ohno in 1970 popularized the idea of gene duplication and divergence. DNA sequence comparison studies reveal that a large portion of the genes in bacteria, archaebacteria, and eukaryotes was  generated by gene duplication and divergence, indicating its critical role in evolution.
The duplicated copies of the gene are called Paralogs. Paralogs with similar sequences and functions form a gene family. Across several species, a large number of gene families are characterized.
Genetic Screens02:46

Genetic Screens

Genetic screens are tools used to identify genes and mutations responsible for phenotypes of interest. Genetic screens help identify individuals or a group of people at risk of developing  genetic diseases and help them with early intervention, targeted therapy, and reproductive options.
Forward genetic screens
Forward or “classical” genetic screens involve creating random mutations in an organism’s DNA using radiation, mutagens, or insertion of additional bases, which result in visible changes...
Synthetic Biology02:55

Synthetic Biology

Synthetic biology is an interdisciplinary science that involves using principles from disciplines such as engineering, molecular biology, cell biology, and systems biology. It involves remodeling existing organisms from nature or constructing completely new synthetic organisms for applications such as protein or enzyme production, bioremediation, value-added macromolecule production, and the addition of desirable traits to crops, to name a few.
Golden rice
Golden rice is a genetically modified...
Cell Specific Gene Expression01:58

Cell Specific Gene Expression

Multicellular organisms contain a variety of structurally and functionally distinct cell types, but the DNA in all the cells originated from the same parent cells. The differences in the cells can be attributed to the differential gene expression. Liver cells, whose functions include detoxification of blood, production of bile to metabolize fats, and synthesis of proteins essential for metabolism, must express a specific set of genes to perform their functions. Gene expression also varies with...

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Related Experiment Video

Updated: Jun 13, 2026

DamID-seq: Genome-wide Mapping of Protein-DNA Interactions by High Throughput Sequencing of Adenine-methylated DNA Fragments
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Reconstructing epigenomic dynamics through a single-cell multi-epigenome data integration framework.

Takeru Fujii1, Kosuke Tomimatsu1, Michiko Kato1

  • 1Division of Transcriptomics, Medical Institute of Bioregulation, Kyushu University, Fukuoka, Japan.

Nature Communications
|December 17, 2025
PubMed
Summary
This summary is machine-generated.

This study introduces a novel single-cell framework to determine the binding order of chromatin factors during gene activation. It reveals the temporal coordination of epigenomic regulators, advancing our understanding of gene regulation.

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Area of Science:

  • Molecular Biology
  • Genomics
  • Epigenetics

Background:

  • Transcriptional regulation involves complex interactions of regulatory factors on DNA.
  • The precise order of epigenomic regulator accumulation during transcription activation is largely unknown.

Purpose of the Study:

  • To develop a single-cell data integration framework for inferring the binding order of chromatin factors.
  • To systematically link combinatorial patterns of transcription factor binding, histone modifications, and chromatin remodeling.

Main Methods:

  • Developed a scalable single-cell method, sci-mtChIL-seq, to profile genome-wide binding of RNA polymerase II (RNAPII) and epigenomic regulators.
  • Integrated multiple sci-mtChIL-seq datasets to define transcriptional states via RNAPII occupancy.

Main Results:

  • Inferred the binding order of multiple chromatin factors at single-cell resolution.
  • Revealed the temporal coordination among various chromatin factors during transcriptional activation.
  • Linked combinatorial patterns of transcription factor binding, histone modifications, and chromatin remodeling.

Conclusions:

  • The developed framework provides a powerful approach to uncover context-dependent epigenomic dynamics.
  • This method advances the understanding of gene regulation principles in complex cellular systems.