Satoshi Takizawa

The human RNA-DNA interactome is cell type-specific and dynamic

The paper maps RNA-DNA interactions in 16 human cell types, showing cell-type-specific and dynamic networks that correlate with gene regulation and disease traits.

RADIP technology comprehensively identifies H3K27me3-mediated RNA-chromatin interactions

The paper introduces RADIP, a new technology for mapping RNA-chromatin interactions mediated by H3K27me3, and demonstrates its application in mouse embryonic stem cells.

xcore: an R package for inference of gene expression regulators

xcore is an R package that models transcription factor activity using ChIP-seq signatures and gene expression data, demonstrating improved biological relevance in case studies.

ReFeaFi: Genome-wide prediction of regulatory elements driving transcription initiation

ReFeaFi predicts regulatory elements genome-wide using a two-model approach, achieving good performance across species and identifying disease-associated variants in human regulatory regions.

C1 CAGE detects transcription start sites and enhancer activity at single-cell resolution

C1 CAGE detects transcription start sites and enhancer activity in lung cancer cells, revealing subpopulations with distinct responses to TGF-β and enhancer RNA dynamics.