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Publications

2026

Synthetic lumen rounding directs neural progenitor division mode

Marchenko M, Martinez Ara G, Pulikkal J, Ishihara K, Ebisuya M

bioRxiv · 2026 DOI ↗
Hyaluronan underlies the emergence of form, fate, and function in human cardioids

Jahnel SM, Dimitriadi A, Kodnar J, Gerakopoulos V, Khurana Y, Mayrhauser M, Ilmer T, Ishihara K*, Mendjan S*

bioRxiv · 2026 DOI ↗ * Corresponding authors

2025

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

Kawaguchi A, Igari M, Murayama Y, Iikawa H, Sakamoto M, Nakamura Y, Kuraku S, Ishihara K, Saito D

bioRxiv · 2025 DOI ↗

2024

Mouse neural tube organoids self-organize floorplate through BMP-mediated cluster competition

Krammer T, Stuart HT, Gromberg E, Ishihara K, Cislo D, Melchionda M, Becerril Perez F, Wang J, Costantini E, Lehr S, Arbanas L, Hörmann A, Neumuller RA, Elvassore N, Siggia E, Briscoe J, Kicheva A, Tanaka EM

Developmental Cell · 2024 DOI ↗

2023

Topological morphogenesis of neuroepithelial organoids

Ishihara K, Mukherjee A, Gromberg E, Brugués J, Tanaka EM, Jülicher F

Nature Physics · 2023 DOI ↗

2016–2021

Force generation by protein–DNA co-condensation

Quail T, Golfier S, Elsner M, Ishihara K, Murugesan V, Renger R, Jülicher F, Brugués J

Nature Physics · 2021 DOI ↗
Spatial variation of microtubule depolymerization in large asters suggests regulation by MAP depletion

Ishihara K, Decker F, Caldas P, Pelletier JF, Loose M, Brugués J, Mitchison TJ

Molecular Biology of the Cell · 2021 DOI ↗
Spindle scaling is governed by cell boundary regulation of microtubule nucleation

Rieckhoff EM, Berndt F, Elsner M, Golfier S, Decker F, Ishihara K, Brugués J

Current Biology · 2020 DOI ↗
Traveling fronts in self-replicating persistent random walks with multiple internal states

Ishihara K, George AB, Cornelius R, Korolev KS

New Journal of Physics · 2020 DOI ↗
How to tune spindle size relative to cell size?

Rieckhoff EM, Ishihara K, Brugués J

Current Opinion in Cell Biology · 2019 DOI ↗
Spontaneous symmetry breaking and pattern formation of organoids

Ishihara K, Tanaka EM

Current Opinion in Systems Biology · 2018 DOI ↗
Reconstitution of a patterned neural tube from single mouse embryonic stem cells

Ishihara K, Ranga A, Lutolf MP, Tanaka EM, Meinhardt A

Methods in Molecular Biology · 2017 DOI ↗
Physical basis of large microtubule aster growth

Ishihara K, Korolev KS, Mitchison TJ

eLife · 2016 DOI ↗

Before 2016

The nuclear proteome of a vertebrate

Wühr M, Güttler T, Peshkin L, McAlister GC, Sonnett M, Ishihara K, Groen AC, Presler M, Erickson BK, Mitchison TJ, Kirschner MW, Gygi SP

Current Biology · 2015 DOI ↗
Size scaling of microtubule assemblies in early Xenopus embryos

Mitchison TJ, Ishihara K, Nguyen P, Wühr M

Cold Spring Harbor Perspectives in Biology · 2015 DOI ↗
Microtubule nucleation remote from centrosomes may explain how asters span large cells

Ishihara K, Nguyen PA, Groen AC, Field CM, Mitchison TJ

Proceedings of the National Academy of Sciences · 2014 DOI ↗
Spatial organization of cytokinesis signaling reconstituted in a cell-free system

Nguyen PA, Groen AC, Loose M, Ishihara K, Wühr M, Field CM, Mitchison TJ

Science · 2014 DOI ↗
Organization of early frog embryos by chemical waves emanating from centrosomes

Ishihara K, Nguyen PA, Wühr M, Groen AC, Field CM, Mitchison TJ

Philosophical Transactions of the Royal Society B · 2014 DOI ↗
Glycogen-Supplemented Mitotic Cytosol for Analyzing Xenopus Egg Microtubule Organization

Groen AC, Nguyen PA, Field CM, Ishihara K, Mitchison TJ

Methods in Enzymology · 2014 DOI ↗
Branching microtubule nucleation in Xenopus egg extracts mediated by Augmin and TPX2

Petry S, Groen AC, Ishihara K, Mitchison TJ, Vale RD

Cell · 2013 DOI ↗
Context-dependent transcriptional interpretation of mitogen activated protein kinase signaling in the Drosophila embryo

Kim Y, Iagovitina A, Ishihara K, Fitzgerald KM, Deplancke B, Papatsenko D, Shvartsman SY

Chaos: An Interdisciplinary Journal of Nonlinear Science · 2013 DOI ↗
Growth, interaction, and positioning of microtubule asters in extremely large vertebrate embryo cells

Mitchison T, Wühr M, Nguyen P, Ishihara K, Groen A, Field CM

Cytoskeleton · 2012 DOI ↗
Pronuclear Migration: No Attachment? No Union, but a Futile Cycle!

Nguyen PA, Ishihara K, Wühr M, Mitchison TJ

Current Biology · 2012 DOI ↗