Related Experiment Video
Updated: Dec 14, 2025
06:24
Multiplexed Analysis of Retinal Gene Expression and Chromatin Accessibility Using scRNA-Seq and scATAC-Seq
Published on: March 12, 2021
3.9K
Parallel bimodal single-cell sequencing of transcriptome and chromatin accessibility.
Qiao Rui Xing1,2, Chadi A El Farran1,3, Ying Ying Zeng1,2
1Epigenetics and Cell Fates Laboratory, Institute of Molecular and Cell Biology, A*STAR, Singapore 138673, Singapore.
Genome Research
|July 24, 2020
Summary
We developed ASTAR-seq, a sensitive method for single-cell transcriptome and chromatin accessibility profiling. This technique reveals regulatory networks and gene-element links across diverse cell states.
Area of Science:
- Single-cell multi-omics
- Epigenetics
- Gene regulation
Background:
- Understanding cell fate requires joint analysis of gene expression and chromatin accessibility.
- Existing methods face limitations in simultaneous profiling within individual cells.
Purpose of the Study:
- To develop and validate ASTAR-seq, a sensitive, automated assay for simultaneous single-cell transcriptome and chromatin accessibility measurement.
- To apply ASTAR-seq to diverse cell types and states to explore regulatory landscapes.
Main Methods:
- Developed ASTAR-seq, an automated assay for joint profiling.
- Applied ASTAR-seq to mouse embryonic stem cells (mESCs), human cell lines, and primary cord blood cells.
- Analyzed transcriptional and chromatin accessibility data to identify cell-state-specific regulatory elements and networks.
Main Results:
- ASTAR-seq successfully profiled transcriptome and chromatin accessibility in single cells across various biological contexts.
- Identified unique cis-regulatory elements and target genes linked to specific cell states.
- Constructed transcription factor-centered regulatory networks and interactomes for different cell populations.
Conclusions:
- ASTAR-seq provides a powerful tool for dissecting gene regulation and cell fate determination at the single-cell level.
- The method enables comprehensive mapping of transcriptional and epigenetic landscapes, advancing our understanding of cellular heterogeneity.
