scEdU-seq

scEdU-seq quantifies DNA replication speeds at single-cell resolution by detecting nascent replicated DNA through 5-ethynyl-2'-deoxyuridine (EdU) incorporation and sequencing, enabling investigation of how replication dynamics vary across S phase and interact with transcription and DNA damage.

Key Features:

• Single-cell DNA replication speed quantification: Measures replication fork speeds in individual cells using EdU-labeled nascent DNA.
• S phase dynamics analysis: Reveals that DNA replication speed accelerates during S phase rather than remaining constant.
• Transcription-replication interaction analysis: Identifies how transcription limits replication speed during early S phase.
• Perturbation response analysis: Supports genetic and pharmacological perturbations to modulate replication acceleration.

Scientific Applications:

• Cell cycle biology: Characterizes replication speed dynamics throughout S phase in human cells.
• DNA damage research: Investigates how transcription-coupled DNA damage constrains early S phase replication speeds.
• Epigenetic state analysis: Explores how replication speed depends on genomic and epigenetic context across cell types.
• Replication-transcription conflict studies: Examines variability in replication speed and its association with transcriptional activity.

Methodology:

scEdU-seq incorporates 5-ethynyl-2'-deoxyuridine (EdU) into nascent DNA during replication, followed by sequencing to detect newly replicated DNA.