Peiyao A Zhao

Beyond A and B Compartments: how major nuclear locales define nuclear genome organization and function

The paper examines genome organization in human cells relative to nuclear locales, finding that gene expression and replication timing correlate with different nuclear structures and that LADs and iLADs compete for lamina attachment.

SPARROW reveals cell states and functions influenced by microenvironment zones in complex tissues.

SPARROW integrates spatial transcriptomics and scRNA-seq to identify microenvironment zones and their influence on cell states and functions across tissues.

Cohesin-mediated loop anchors confine the location of human replication origins

This study shows that cohesin-mediated loops in G1 phase determine the genomic location of replication origins in S phase by anchoring replication initiation zones.

Replication timing maintains the global epigenetic state in human cells.

This study shows that replication timing (RT) is essential for maintaining the global epigenetic state and genome compartmentalization in human cells, with RIF1 playing a central role in this process.

High Resolution Repli-Seq defines the temporal choreography of initiation, elonga-tion and termination of replication in mammalian cells

The paper defines the temporal choreography of DNA replication in mammalian cells using High Resolution Repli-Seq, revealing conserved replication timing patterns and cell-type-specific correlations with chromatin features.

Local rewiring of genome - nuclear lamina interactions by transcription.

The paper investigates how gene activation affects nuclear lamina interactions and shows that transcription can locally rewire these interactions without broadly altering chromosomal regions.

Identification of cis elements for spatio-temporal control of DNA replication

The paper identifies cis-regulatory elements (ERCEs) that control domain-wide replication timing, chromatin compartmentalization, and transcription in mouse embryonic stem cells.