Light sheet microscopy offers intermediate-to-high optical resolution, good optical sectionning capabilities and high speed - perhaps the right choice for your research? Designing a proper experimental setup that fits your experiment may be challenging and may require a lot of time. This workshop will take you through each step from methodological aspects to data analyses:

• CLEARING Is the clearing technique expanding or shrinking the sample? Is it conserving endogenously expressed fluorophores? You will learn about the different clearing methods.
• IMMUNOSTAINING & IMAGING How should refractive index and toxicity be considered during imaging? Get hands-on time at both the Zeiss Lightsheet 7 microscope and the custom-built "Flamingo" light sheet microscope from the Huisken lab.
• BIG DATA STORAGE, 3D DATA DISPLAY & ANALYSIS How can quantitative data be extracted from 3D data sets? Get familiar with free-ware options in Fiji/Image J as well as with commercial solutions like ZEISS arivis.

Altogether, our aim is to give you an overview on current best practice in light sheet microscopy, to provide tips and tricks on each step and to ensure that you obtain basic light sheet microscopy experience by performing each step yourself. Finally, there will be the possibility to briefly present your project.

Experts will be happy to answer your questions along the way!   

Participants should bring their own laptop (with mouse for convenience) for the Arivis data anlysis part. It is necessary to remote connect to the Acquifer Hive system where Arivis runs. If you would like to take your data home with you, bring a large hard drive (min 1TB).

To make optimal use of the workshop, bring your own sample. For support, contact us before you start clearing (at least 3 weeks before the beginning of the workshop). Contact us at imaging@biomed.au.dk 

Clearing & Imaging

Big Data Storage & Analysis

 Invited Speakers    

Signing up

When signing up, you will be asked for EAN or CVR numbers. For the correct numbers, please consult the person in your lab in charge of invoicing and finances. These are unique numbers for your university/institution: EAN (European Article Number) used for digital invoicing, CVR (Central Business Register) used to identify businesses. In stead of a CVR number, a VAT number may be used, if your institution is VAT registered.

One-slide Presentation and Welcome Reception

Please prepare one ppt slide in which you briefly describe your project/motivation. You will present your slide in an informal setting during the reception on Monday evening with the purpose to encourage mingling. Please bring your slide on a USB-stick or send it by e-mail. Participation at the Welcome Reception is free of charge.

Practicalities

Please bring your own laptop every day.

Accomodation & Venue

> Accommodation will need to be organised by each participant. We are unfortunately unable to provide accomodation.

> Aarhus is a fairly small city with most accomodations within walking distance.

> Public transportation in Aarhus

> Tourist information Aarhus

> Aarhus University Campus Map (in DK only; type in the building number/name in the search field)

> For Aarhus University app, download AU Find for iOS or Android

Certification

A workshop certificate will be sent by e-mail to participants, upon request, after the workshop.