Hisanori Kiryu

The paper introduces CoSMIM, a method for spatial domain identification that uses multi-scale gene-gene covariance matrices, achieving top performance on multiple benchmark datasets.

This paper introduces RENGE, a method for inferring gene regulatory networks from time-series scCRISPR data, which outperforms existing methods and produces GRNs consistent with known databases.

The paper identifies ergodicity as the mechanism underlying the reproducibility of embryonic development in zebrafish tailbud by analyzing gene expression and cell motion states.

reactIDR evaluates the statistical reproducibility of high-throughput RNA structural analyses to classify RNA reactivity into stem, loop, and unmapped categories with high accuracy.

The paper develops an efficient algorithm to infer gene regulatory networks in Drosophila melanogaster embryogenesis, identifying key regulatory interactions and demonstrating its computational efficiency.

SCODE infers gene regulatory networks from single-cell RNA-Seq data during differentiation, showing improved performance and efficiency compared to existing methods.