Ichiro Hiratani

This study uses Hi-C in mouse embryonic stem cells to show A/B compartment strength increases during S-phase, challenging previous views on cell-cycle dynamics.

The paper identifies repeat element-anchored enhancer-promoter interactions (REEPIs) in hormone-resistant breast cancer and links them to transcriptional adaptation and regulatory reprogramming.

The paper identifies coding DNA sequence density as a universal predictor of chromatin compartmentalization across species, revealing its conservation over evolutionary time.

The paper shows that proteasome-dependent removal of Orc6 from chromatin during S-phase prevents abnormal MCM reloading and tetraploidy in human cells.

The paper analyzes vertebral formulae across tetrapods to identify homeotic and non-homeotic patterns, revealing unexpected balances and correlations with Hox gene clusters.

The paper investigates the role of H3K9me2 in 3D genome organization by analyzing its distribution, transcriptome, and chromatin structure in mouse embryonic stem cells with altered H3K9 methyltransferase activity.

This study benchmarks Hi-C methods for chromosome-scale genome scaffolding, identifying key factors that improve scaffolding quality and introduces a new protocol.

This study introduces scRepli-seq, a single-cell DNA replication sequencing method, and shows replication domain organization is conserved in mouse embryonic stem cells, with some cell-to-cell heterogeneity linked to developmental plasticity.