Related Experiment Video
Updated: Jul 27, 2025
22:27
Hi-C: A Method to Study the Three-dimensional Architecture of Genomes.
Published on: May 6, 2010
409.2K
Linking genome structures to functions by simultaneous single-cell Hi-C and RNA-seq.
Zhiyuan Liu1,2, Yujie Chen1,2, Qimin Xia1,2
1Biomedical Pioneering Innovation Center (BIOPIC), School of Life Sciences, Peking University, Beijing, China.
Science (New York, N.Y.)
|June 8, 2023
Summary
A new method, Hi-C and RNA-seq employed simultaneously (HiRES), links 3D genome structure to gene expression in single cells. This reveals how chromatin rewiring precedes gene activation during cell development.
Area of Science:
- Genomics and Molecular Biology
- Developmental Biology
- Epigenetics
Background:
- Single-cell chromosome conformation capture technologies have advanced significantly.
- A method for simultaneous profiling of chromatin architecture and gene expression was lacking.
Purpose of the Study:
- To develop and apply a novel assay for simultaneous single-cell chromatin architecture and gene expression profiling.
- To investigate the dynamics of 3D genome structure during mouse embryonic development.
Main Methods:
- Development of the Hi-C and RNA-seq employed simultaneously (HiRES) assay.
- Application of HiRES to thousands of single cells from developing mouse embryos.
Main Results:
- Single-cell 3D genome structures showed cell type-specific divergence during development, influenced by cell cycle and developmental stage.
- Pseudotemporal analysis revealed widespread chromatin rewiring preceding transcriptional activation.
- Established chromatin interactions are closely linked to transcriptional control and cell functions in lineage specification.
Conclusions:
- The HiRES assay enables simultaneous analysis of genome architecture and gene expression at the single-cell level.
- Chromatin rewiring plays a critical role in regulating gene expression and cell fate during development.
More Related Videos
Related Concept Videos
03:21RNA-seq
10.1K
RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases.
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...
10.1K
03:36Genome Annotation and Assembly
18.9K
The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.
18.9K
02:24Ribosome Profiling
3.6K
Ribosome profiling or ribo-sequencing is a deep sequencing technique that produces a snapshot of active translation in a cell. It selectively sequences the mRNAs protected by ribosomes to get an insight into a cell’s translation landscape at any given point in time.
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique...
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique...
3.6K