A human induced pluripotent stem cell model for the holistic study of epithelial-to-mesenchymal transitions
The epithelial-to-mesenchymal transition (EMT) is a widely studied cell state change, yet differences in model design and measurement approaches limit comparison across studies. Addressing this challenge requires experimental model systems and analysis frameworks that support standardization across contexts. Here, we show that human induced pluripotent stem (hiPS) cells in defined cell culture geometries, two-dimensional colonies and three-dimensional lumenoids, enable multimodal measurements of EMT dynamics within a single experimental platform. Using fixed-cell and live-cell image-based assays, we quantify changes in cell migration, EMT-related molecular markers, cell-cell junction organization and interactions with the basement membrane, a specialized form of the extracellular matrix, during EMT induced in hiPS cells. We identify cell culture geometry-dependent differences in the timing of migration onset and show that basement membrane integrity can be quantitatively linked to these differences. Together, these results establish an imaging-based framework for analysis of cell state transitions and provide accessible datasets and tools.
Authors
- Gaea Turman
- Clare Gamlin (ORCID: https://orcid.org/0000-0002-5975-7003)
- Sandra A. Oluoch
- Leigh K. Harris
- Chamari S. Wijesooriya (ORCID: https://orcid.org/0000-0001-5220-6519)
- Tiffany Barszczewski (ORCID: https://orcid.org/0000-0003-4760-5317)
- M. Filip Sluzewski
- Gökhan Dalgin (ORCID: https://orcid.org/0000-0002-9696-989X)
- Alexandra J. Ferrante
- Lyndsay Wilhelm
- Serge E. Parent (ORCID: https://orcid.org/0000-0002-2656-4440)
- Derek Thirstrup (ORCID: https://orcid.org/0000-0002-2702-2010)
- Kyle N. Klein (ORCID: https://orcid.org/0000-0002-7713-2787)
- Sean L. Meharry (ORCID: https://orcid.org/0000-0001-9261-0401)
- Susanne M. Rafelski (ORCID: https://orcid.org/0000-0002-1399-5970)
- John Paul Thottam
- Antoine Borensztejn (ORCID: https://orcid.org/0000-0003-0247-5395)
- Caroline Hookway
- Ellen M. Adams (ORCID: https://orcid.org/0000-0002-8120-8553)
- Julie C. Dixon (ORCID: https://orcid.org/0000-0001-9829-194X)
- Chantelle L. Leveille (ORCID: https://orcid.org/0000-0002-9486-7304)
- Matheus P. Viana (ORCID: https://orcid.org/0000-0001-9288-2108)
- Ruwanthi N. Gunawardane (ORCID: https://orcid.org/0000-0002-2698-5245)
- Julia R. Torvi (ORCID: https://orcid.org/0000-0002-2323-4438)
- Margaret A. Fuqua (ORCID: https://orcid.org/0000-0001-5170-4401)
- Julie A. Theriot (ORCID: https://orcid.org/0000-0002-2334-2535)
- Ashwin Samudre (ORCID: https://orcid.org/0000-0001-8136-7645)
- Benjamin W. Gregor (ORCID: https://orcid.org/0000-0002-9205-801X)
- Janani Gopalan (ORCID: https://orcid.org/0000-0001-7094-1074)
- Philip Garrison
- Erik A. Ehlers
- Jacqueline H. Edmonds
- Gouthamrajan Nadarajan (ORCID: https://orcid.org/0000-0002-7617-2197)
- Maxwell J. Hedayati
- Lev S. Snyder
- Renske J. Dupar (ORCID: https://orcid.org/0009-0000-1467-4901)
- Ricardo Mercado
- Brock Roberts
- Jie Yao
- Suraj Mishra
- Hannah F. Thorp
- Victoria L. Hurless
- Emmanuel E. Sanchez
- Haley S. Morris
- Sara Carlson
- Amber Phan
- Nivedita Nivedita
Institutions
- Howard Hughes Medical Institute (US)
- University of Washington (US)
- Allen Institute (US)
- Allen Institute for Cell Science (US)
Publication Details
- Journal
- Nature Methods
- Published
- 2026-06-15
- DOI
- https://doi.org/10.1038/s41592-026-03096-9
- Citations
- 1
- Primary Topic
- Cancer Cells and Metastasis
- Type
- article
- Field-Weighted Citation Impact
- 9.49