Workshops

Array Tomography Workshop

3-8 November, 2024

This workshop will cover entire array tomography (AT) workflows including sample preparation, serial ultramicrotomy, light and electron microscopy, and image analysis. Practicals include traditional AT methods like rigid support AT and automated tape collecting ultramicrotomy (ATUM), correlative and conjugate light and electron microscopy. Novel technologies will also be discussed.

Organized by: Imaging Scientists from the Chan Zuckerberg Initiative (CZI) "Array Tomography Network and Training"

Introduction to Scientific Programming with Python

Juni 4-7, 2019

In this workshop, we cover the basics of the Python programming language and some of its scientific library in order to enable students to conduct data analysis, focusing techniques for performing essential data analysis steps using real-life problems that the practicing scientist regularly encounters in his/her work. Libraries covered will be NumPy, MatPlotLib, Pandas, Seaborn, and Scipy-Stats. Students will learn to write their own functions, scripts, and Jupyter Notebooks. While this is an intensive course, no programming, math, or statistics knowledge is required.

Organized by: Christine Schlosser

Tissue Clearing Workshop

Juli 24-27, 2017

The workshop demonstrates:

3DISCO and uDISCO clearing of organs, rodents and large human tissues
Imaging of entire organs and rodents with light-sheet microscope
Advantages of DISCO clearing in your research
iDISCO antibody labeling of organs for 3D imaging
How to optimize clearing in your particular tissue of interest and application
3D analysis of the large data from light-sheet scans
Demo: light-sheet microscopy by Lavision BioTec and ZEISS
Demo: 3D image analysis software by FEI (Amira), Bitplane (Imaris) and MBF bioscience (Neurolucida), Arivis (immersive view with 3D glasses)

Organized by: Ertürk lab

Tissue Clearing Workshop

Juli 18-22, 2016

The workshop demonstrates:

Clearing of entire rodent organs and large human tissues
Imaging of cleared tissues with light-sheet microscope
Advantages of DISCO clearing compared to others including CLARITY
How to optimize your particular tissue of interest and application
iDISCO antibody labeling of unsectioned organs for 3D imaging
3D analysis of the data
Demo: light-sheet microscopy by Lavision BioTec and Zeiss
Demo: 3D software by FEI (Amira), Bitplane (Imaris) and MBF (Neurolucida)

Organized by: Ertürk lab

Basic proteomics

Juni 30 - Juli 04, 2014

The course “Basic Proteomics” includes a basic introduction into proteomics with a focus on mass spectrometry based techniques. This involves the following topics: Application of proteomics (including analysis of secretomes, whole organs, tissues, cells), Sample preparation, Mass spectrometry based techniques, Data acquisition, analysis and interpretation. The morning sessions provide the theoretical bases. The afternoon sessions consist of hands-on laboratory training covering the topics from the theoretical training. The course provides a basic overview and training of mass spectrometry based proteomics. The students will understand opportunities but also limitations of the presented methods. A basic understanding of MS based proteomics will help the students to collaborate with proteomics groups. Moreover, the course enables the participants to carry out sample preparations by themselves prior to mass spectrometry. Each student will present a scientific paper related to mass spectrometry based proteomics followed by discussions. The papers are chosen by the instructors.

Organized by: Prof. Dr. Stefan Lichtenthaler

Advanced Techniques in Light Microscopy

Dezember 02-06, 2013

This course focuses on slightly advanced (but not esoteric) techniques of optical microscopy in life sciences - mainly confocal/ two-photon imaging and in vivo applications. For the very basics, the "Basic Microscopy" course that we occasionally offer is more recommended.

We will introduce the concepts and technology behind confocal and two-photon microscopy with a focus on in vivo applications. We will talk about fluorescence, lasers, scanners and detector systems. We will discuss how in vivo imaging is done in different species and what should be considered. Calcium imaging will be discussed in some depth, as this is one of the most widely used modalities of functional in vivo imaging. In the outlook section, we will discuss more "fancy" techniques that are emerging to cover large volumes or transcend the resolution limit. As we are neuroscientists there will be a certain bias to imaging the brain; however, we will try to keep the course general enough so that also non-neuroscientists can benefit.

The techniques that will be taught in this course: