mesoSPIM User Meeting: Thursday, March 10th, 2022
The User Meeting was held fully online via Zoom, with 209 registered participants from all over the world!
Program
| Time | Talk |
|---|---|
| 9:00-9:15 | Welcome by Fritjof Helmchen, UZH |
| Session 1 | Clearing techniques. Moderator: Nikita Vladimirov |
| 9:15-9:35 | Alba Vieites Prado (Renier Lab, ICM) iDISCO+ tissue clearing and ClearMap for the analysis of axonal projections and brain vasculature. |
| 9:40-10:10 | Etsuo Susaki (Juntendo University) CUBIC for whole-organ/body cell circuit and tissue architecture analysis. |
| 10:15-10:35 | Shan Zhao (Bodenmiller Lab, UZH) The challenges of human tissue clearing, imaging and application. |
| 10:40-11:00 | Sven Hildebrand (Roebroeck Lab, Maastricht University) Investigating the human neocortex in 3D: Approaches for imaging angioarchitecture, cytoarchitecture, and intrinsic cortical connectivity. |
| 11:00-11:15 | Break |
| 11:15-12:00 | Nikita Vladimirov (Helmchen Lab & ZMB, UZH) Demo of a mesoSPIM workflow. |
| 12:00-13:00 | Lunch break |
| Session 2 | Developers: current status and outlook. Moderator: Philipp Bethge |
| 13:00-13:20 | Fabian Voigt (Engert Lab, Harvard) Mollusc-inspired microscope objectives for imaging cleared tissue. |
| 13:20-13:40 | Nikita Vladimirov (Helmchen Lab & ZMB, UZH) mesoSPIM development and updates. |
| Session 3 | Facility managers and power users: experiences and challenges. Moderator: Fabian Voigt |
| 13:40-14:00 | Laura Batti (Wyss Center) ALICe: Advanced Lightsheet Imaging Center. |
| 14:00-14:20 | José María Mateos (ZMB, UZH) Experiences running the MesoSPIM in a Core Facility |
| 14:20-14:40 | Anna-Maria Reuss (Aguzzi Lab, USZ) mesoSPIM imaging and handling of large human data sets |
| 14:40-15:00 | Thomas Naert (Lienkamp Lab, UZH) mesoSPIM and U-Net deep learning: three-dimensional modeling of embryonic development and disease |
| 15:00-15:15 | Break |
| Session 4 | Image processing and visualization. Moderator: Nikita Vladimirov |
| 15:15-15:35 | Stephan Preibisch (HHMI Janelia) Towards reconstruction of peta-scale lightsheet microscopy datasets |
| 15:35-15:55 | Peter Majer (Oxford Instruments/Bitplane). Imaris and lightsheet data analysis. What works well () |
| 15:55-16:15 | Benjamin Schmid (OICE) Intuitive rendering of 3D animations from microscope data using 3Dscript, locally and on a server. |
| 16:15-16:35 | Johannes Paetzold (Ertürk Lab, TUM) Machine learning for vascular structures in microscopic data. |
| 16:35-16:45 | Break |
| 16:45-17:30 | Virtual round table: Extended Q&A, discussion, current problems and future directions. Moderator: Philipp Bethge. |
Recordings
The talks are now posted on mesoSPIM YouTube channel. Some talks are edited or omitted at the speaker’s request due to confidential information (a no-publish request). Thank you for understanding!