Swiss Light-sheet Microscopy Workshop 24-25 Apr 2019
Irchel Campus, UZH Zürich

 

UPDATE 12th March 2019:

 

To all participants who have submitted an abstract:

We will select 5 speakers among all submitted abstracts and inform those that are selected via email in the coming days.

If you are not selected but have submitted an abstract we look forward to your poster presentation. Our poster boards are 180 x 135 cm (landscape-format) with no further poster guidelines.

 

 

The aim of the event is to strengthen the local and international network and facilitate the exchange of ideas between the lightsheet users and developers.

Speakers:

Kishan Dholakia University of St. Andrews
Jan Huisken MIR, Madison
Lars Hufnagel EMBL, Heidelberg
Florian Jug MPI-MCBG, Dresden
Daniel Kirschenbaum USZ, Zurich
Prisca Liberali FMI, Basel
Christian Mosimann UZH, Zurich
Stéphane Pagès Wyss Center, Geneva
Francesca Peri UZH, Zurich
Paola Perin University of Pavia
Stefan Preibisch MDC, Berlin
Nicolas Renier ICM, Paris
Raju Tomer Columbia University, New York
Fabian Voigt UZH, Zurich

Day 1 - 24 April 2019

New technology developments in lightsheet microscopy • The latest applications in lightsheet microscopy • Sample preparation including clearing techniques and immunolabelling • Data visualization and analysis • New approaches in post-processing

09h00

Registration – coffee and croissants

10h00

Welcome

Fritjof Helmchen, Brain Research Institute, UZH

Urs Ziegler, Center for Microscopy and Image Analysis, UZH

Morning Session

Chair: TBA

10h10

Kishan Dholakia: "Enhancing Light Sheet Microscopy using shaped light and sound"

University of St. Andrews

10h30

Talk selected from abstract

 

10h45

Prisca Liberali: Self-organization in intestinal organoid development

FMI, Basel

11h05

Talk selected from abstract

 

11h20

Keynote lecture

Raju Tomer: TBA

Columbia University

12h00

Lunch - Poster session – Company Exhibitions - Y-Lichthof

Afternoon session

Chair: TBA

14h00

Francesca Peri: Brain imaging across scales: studying neuronal-immune interactions during the development of the CNS

IMLS, UZH

14h20

Daniel Kirchenbaum: "3D histology of Alzheimer disease"

USZ

14h35

Talk selected from abstract

 

14h50

Keynote lecture

Nicolas Renier: Scaling analysis tools to map intact adult mouse brains using light sheet microscopy

ICM - Brain and Spine Institute, Paris

15h30

Coffee break and networking - Y-Lichthof

Afternoon session: Post-processing and data analysis

Chair: TBA

16h00

Stephan Preibisch: BigStitcher: Reconstructing high-resolution image datasets of cleared and expanded samples

Delbrück Zenrum, Berlin

16h20

TBA

Application talk (Arivis)

16h35

Florian Jug: Content-Aware Image Restoration for Light and Electron Microscopy

MPI, Dresden

16h55

Wine & Cheesse - Poster session - Company Exhibition

 

Day 2 - 25 April 2019

New technology developments and the latest applications in lightsheet microscopy • Company presentations • Hands-on sessions and practical demonstrations with the custom lightsheet microscope developed by Fabian Voigt • Demonstrations of virtual reality visualization of lightsheet data

Morning Session

Chair: TBA

09h00

Lars Hufnagel: TBA

EMBL, Heidelberg

09h20

Fabian Voigt: The mesoSPIM Initative

HIFO, UZH

09h40

Talk selected from abstract

 

09h55

Paola Perin: Three-dimensional imaging and segmentation of the rat choroid plexus

University of Pavia

10h15

Stéphane Pagès

Wyss Center, Geneva

10h35

Cofee break and networking – Y-Lichthof

11h00

Talk selected from abstract

 

11h15

Talk selected from abstract

 

11h30

Christian Mosimann: "SPIM-ing cardiovascular development and disease using zebrafish"

IMLS, UZH

11h50

Keynote lecture

Jan Huisken: Flamingo: a customizable and shareable light sheet microscope

Morgridge Institute for Research, Madison

12h30

Lunch - Poster Session - Company Exhibitions

Afternoon session

 

13h30

Mathias Pasche-Drews: Advances in back-illuminated Scientific CMOS technology.

Photometrics

13h45

Peter Zehetmayer: Big Image Data - Storage, Processing and Analysis with Local Private Cloud Computing.

Acquifer

14h00

Oliver Bauhofer: X-CLARITY Tissue Clearing System: Accelerate your tissue clearing without loosing structure or function.

Bucher

14h15

TBA

Arivis

14h30

Monika Löschinger: Luxendo Light Sheet Microscopes - born from research, made for all.

Luxendo (bruker)

14h45

Michael Desert & André Jelicic: Solution for high compression rate, efficient transfer and archiving of light sheet microscopy imaging.

Dotphoton, Geneva University

15h00

Dieter Goehlmann: Imaris Solutions for Big Data

Bitplane

15h15

Coffee break and networking

16h00

Company talks

Zeiss

16h30 

Time reserved for demos by companies

 

 

Day 3 - 26 April 2019

Hands-On Session

For registered participants for day 3 we offer the opportunity for users to bring their own samples and image/ analyse them with the support of the experts on the system. Schedule of individual time-slots for day 3 will be announced during the meeting.

We have following microscopes for testing:

- the mesoSPIM exclusively for cleared samples (CLARITY, CUBIC, iDISCO, BABB) with labels excitable by laserlines: 405, 488, 515, 561, 594 and 647 nm

http://mesospim.org/

- Zeiss Z.1 for samples in regular water based buffers (e.g. zebrafish) for fluorophores excitable by laserlines: 405, 445, 488, 561 and 638 nm.

ZEISS Lightsheet Z.1

 

- possibly another lightsheet vendor (TBA)

 

 

For data visualization and analysis:

- Arivis Analysis Software software for visualization, sharing, analysis and presentation of multi -channel 2D, 3D and 4D image data of almost unlimited size. https://www.arivis.com/de/imaging-science/arivis-vision4d

Please check again here for updates on how we will deal with data handling (i.e. prior upload, SSD, Cloudservice)