scRepli-RamDA-seq: a multi-omics technology enabling the analysis of gene expression dynamics during S-phase

Area of Science:

• Genomics
• Molecular Biology
• Bioinformatics

Background:

• Single-cell sequencing enhances understanding of cellular diversity.
• Existing methods struggle to track gene expression dynamics during S-phase.
• Need for integrated DNA replication and RNA sequencing at single-cell resolution.

Purpose of the Study:

• Introduce single-cell Repli-RamDA-seq (scRR-seq), a novel multi-omics method.
• Enable high-resolution DNA replication profiling and full-length RNA sequencing from the same cell.
• Facilitate analysis of gene expression dynamics during S-phase progression.

Main Methods:

• scRR-seq combines DNA replication profiling (scRepli-seq) and RNA sequencing (scRamDA-seq) in single cells.
• Haplotype-specific analysis of both DNA and RNA.
• Utilizes percentage of replicated genome to determine S-phase stage.

Main Results:

• scRR-seq generates high-quality DNA replication and RNA sequencing data.
• Enables precise S-phase staging of individual cells.
• Identifies S-phase progression markers and detects copy-number variation.

Conclusions:

• scRR-seq is a robust single-cell multi-omics method.
• Offers comprehensive genome and transcriptome analysis capabilities.
• Promising for studying cell-type heterogeneity and dynamics.