Chromatin Signatures During Differentiation: Integrated Omics

Overview

Course Overview

Genomic and proteomic approaches have enabled breakthrough advances in the understanding of chromatin biology. This course attempts to integrate these omics approaches to understand the principle of chromatin operation and its biological relevance. Using a murine embryonic stem cells as a tractable model system, this course aims to analyse the composition and variation of chromatin components using antibody and small molecule tools, and the “epigenetic landscape” at key time points following the induction of cellular differentiation.

During the 5 days of the course we will teach how murine stem cells can be differentiated into neuronal progenitors, how specific antibodies and small molecule drugs can be used to enrich for chromatin loci by ChIP- and Chem-seq approaches and how Mass Spectrometry and Next Generation Sequencing read-outs can be used to identify proteins and DNA associated with transcriptionally active chromatin. Combined with the experimental part, a series of lectures given by academic and industry experts in the field will expand the topic of chromatin players and the use of small molecule probes to understand chromatin biology.

Audience

This course is aimed at PhD students and post-doctoral researchers who seek to assess chromatin reorganization and/or are working in the field of neuronal development.

Modules/Resources

• Culture and neuronal differentiation of murine stem cells
• Chromatin sample preparation for genomic and proteomic analysis by means of antibodies and small molecules
• Meta-analysis of post sequencing data
• Integration of MS proteomic data

Learning Outcomes

After this course participants should be able to:

• Cultivate and differentiate neuronal murine stem cells
• Prepare chromatin samples for genomic and proteomic analysis
• Analysis genomic and proteomic data

Speakers

Vladimir Benes

EMBL Heidelberg

Germany

Tiziana Bonaldi

European Institute of Oncology

Italy

Emmanuel Demont

GSK

United Kingdom

Maria Faelth Savitski

Cellzome/GSK

Germany

Charles Girardot

EMBL Heidelberg

Germany

Paola Grandi

Cellzome/GSK,Cellzome/GSK

Germany

Jeroen Krijgsveld

German Cancer Research Center (DKFZ)

Germany

Kyung-Min Noh

EMBL Heidelberg

Germany

Karsten Rippe

German Cancer Research Cente (DKFZ) and the Bioquant Center in Heidelberg

Germany

Mikhail Savitski

EMBL Heidelberg

Germany

Tanja Vogel

University of Freiburg

Germany

Judith Zaugg

EMBL Heidelberg

Germany

Nico Zinn

Cellzome/GSK

Germany

Trainers

Lucia Gordillo Perez

EMBL Heidelberg

Germany

Dominic Helm

EMBL Heidelberg

Germany

Inyoung Hwang

EMBL Heidelberg

Germany

Mandy Rettel

EMBL Heidelberg

Germany

Mathias Andres Saver Cortes

EMBL Heidelberg

Germany

Jelle Scholtalbers

EMBL Heidelberg

Germany

Satoko Shimamura

Cellzome/GSK

Germany

Matteo Trovato

EMBL Heidelberg

Germany

Scientific Organisers

Paola Grandi

Cellzome/GSK

Germany

Kyung-Min Noh

EMBL Heidelberg

Germany

Course Organisers

Christina Dollt

EMBL Heidelberg

Germany

Programme