[Embrio-list] EMBRIO Weekly Update

[Brent Thomas Ladd]

[cid:6ad0b25d-55e9-40b2-9ac2-9ce1398ea1e9]
Dear EMBRIOphytes,

ALL-HANDS LAB
Our next All-Hands Lab session will be this coming Monday, Nov. 17th, 3pm with Alexandria Nguyen (Chan Lab)  presenting her talk titled "Measuring cell and tissue-level stiffnesses with atomic force microscopy" and will feature work in collaboration with the Evans and Deng labs: https://purdue-edu.zoom.us/j/92061591849?pwd=wclgpzLpzWKsZ9M2XYwM7Kbumaabr3.1&from=addon<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fpurdue-edu.zoom.us%2Fj%2F92061591849%3Fpwd%3DwclgpzLpzWKsZ9M2XYwM7Kbumaabr3.1%26from%3Daddon&data=05%7C02%7Cembrio-list%40ecn.purdue.edu%7C9a853ea6fe6248170fe708de23a6a029%7C4130bd397c53419cb1e58758d6d63f21%7C1%7C0%7C638987395709946338%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=hzg8y%2Ft5kkTWurjpdv0eACUbcpV5XoVdSgOuJJrb5as%3D&reserved=0>


NEW EMBRIO PUBLICATIONS
A new paper in PLOS Computational Biology is available: "Surrogate modeling of Cellular-Potts Agent-Based Models as a segmentation task using the U-Net neural network architecture." Congrats to James Glazier and his collaborators on this new work that employs a U-Net convolutional neural network to accelerate simulations of Cellular Potts Models (CPMs): https://doi.org/10.1371/journal.pcbi.1013626<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdoi.org%2F10.1371%2Fjournal.pcbi.1013626&data=05%7C02%7Cembrio-list%40ecn.purdue.edu%7C9a853ea6fe6248170fe708de23a6a029%7C4130bd397c53419cb1e58758d6d63f21%7C1%7C0%7C638987395709978587%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=F4pcAZAo1wZNDmwIPBkt1zmpZVzemCNRM4ySHAVfjII%3D&reserved=0>

🔬 Key Findings of the Paper:

  *
The authors developed a deep learning surrogate model using a U-Net convolutional neural network to accelerate simulations of Cellular Potts Models (CPMs).
  *   CPMs are widely used to simulate multicellular biological systems, such as vasculogenesis.
  *   The surrogate model predicts future states of CPMs up to 562× faster than traditional simulations, while preserving key emergent behaviors like vessel sprouting, extension, and anastomosis.
  *   This approach enables efficient modeling of complex biological processes over larger spatial and temporal scales.

There are several EMBRIO collaborative research papers that will be published in the next month that we'll highlight here in future announcements. As papers are made available live by the jounrnals, they are added to our Google Scholar page<https://nam04.safelinks.protection.outlook.com/?url=https%3A%2F%2Fscholar.google.com%2Fcitations%3Fhl%3Den%26user%3D-gQWba8AAAAJ%26view_op%3Dlist_works%26authuser%3D1%26gmla%3DAH70aAVM8yPeKYknph-fu5nB09Nm1PGoxA5jWkVbnlBqFCJlbiXFEYwKI9S1weQ1_OFaXNCWtNkps95_OQkY7uGI&data=05%7C02%7Cembrio-list%40ecn.purdue.edu%7C9a853ea6fe6248170fe708de23a6a029%7C4130bd397c53419cb1e58758d6d63f21%7C1%7C0%7C638987395709997713%7CUnknown%7CTWFpbGZsb3d8eyJFbXB0eU1hcGkiOnRydWUsIlYiOiIwLjAuMDAwMCIsIlAiOiJXaW4zMiIsIkFOIjoiTWFpbCIsIldUIjoyfQ%3D%3D%7C0%7C%7C%7C&sdata=eSDHQokDoFvnaDbuTjmKp%2F5T4LmosMma7PwlEUb%2F%2FwQ%3D&reserved=0>.

See you all next Monday afternoon!
Brent

Brent T. Ladd, Senior Research Program Manager, EMBRIO Institute<https://www.purdue.edu/research/embrio/>
Weldon School of Biomedical Engineering, Purdue University
Office: Hall for Discovery Learning and Research, Ste. 203
207 S. Martin Jischke Drive
West Lafayette, IN 47907
laddb at purdue.edu

-------------- next part --------------
An HTML attachment was scrubbed...
URL: </ECN/mailman/archives/embrio-list/attachments/20251114/53253d68/attachment-0001.htm>
-------------- next part --------------
A non-text attachment was scrubbed...
Name: EMBRIO-Weekly-Update-Header.jpg
Type: image/jpeg
Size: 61959 bytes
Desc: EMBRIO-Weekly-Update-Header.jpg
URL: </ECN/mailman/archives/embrio-list/attachments/20251114/53253d68/attachment-0001.jpg>