Keisuke Ishihara

Minkowski Tensors as a Lightweight and Interpretable Representation for Three-Dimensional Morphology

This paper introduces Minkowski Tensors as interpretable 3D shape descriptors, showing competitive performance on biomedical image classification tasks.

Senescence targeting re-enables injury-responsive repair in a human RPE aging model

This study uses a human RPE aging model to show that targeting senescent cells can re-enable injury-responsive repair in aged RPE.

Minimal essential requirements for neural tube self-organisation

The paper shows that RA induces a transient co-expression state of PAX6 and FOXA2 in neural tube organoids, leading to two opposing cell fates that determine cell-type proportions through feedback signaling.

Hyaluronan underlies the emergence of form, fate, and function in human cardioids

This study shows hyaluronan drives cavity formation, cell identity, and function in human cardioids through mechanical and bioscaffolding roles.

ATAC-seq of Low-Input and Cryopreserved Primordial Germ Cells Reveals Functional Enhancers

The paper optimizes ATAC-seq for low-input and cryopreserved chicken primordial germ cells, identifying PGC-specific chromatin regions and their functional roles.

Synthetic lumen rounding directs neural progenitor division mode

This study shows that altering lumen shape in human brain organoids affects apical progenitor division orientation and lineage progression.

pykarambola: Minkowski tensor morphometry of 3D structures

pykarambola provides a Python implementation of Minkowski tensor morphometry for 3D structures, offering compatibility with bioimage workflows and performance benchmarks.

Neural tube organoids self-organise floorplate through BMP-mediated cluster competition

The paper shows how floorplate organiser forms autonomously in neural tube organoids through BMP-mediated cluster competition and FOXA2 dynamics.