Inhaltspezifische Aktionen

de.NBI Summer School 2021

We are pleased to announce that the de.NBI Summer School 2021 on Microbial Community Data Analysis will take place from October 4th to 8th, 2021.

Major topics

The German Network for Bioinformatics Infrastructure (de.NBI) presents the Summer School on Microbial Community Data Analysis that is organized by the Bielefeld-Gießen (BiGi) Center for Microbial Bioinformatics. The BiGi center is specialized in the field of Omics data analysis for microbes and is well-known for its software platforms such as EMGB, MetaProtServ, or MGX. During the event, we will cover topics such as sequence data preprocessing, amplicon data analysis (metabarcoding), read- and assembly based metagenomics, and metaproteomics.

 

Program

*All times refer to Central European Summer Time (CEST). The program includes talks, lectures and hands-on trainings that the participants will conduct online or on their own computers/laptops.

Monday, 04.10.2021

  • 10:00-10:30  Welcome note (A. Goesmann)
  • 10:30-11:00  Presentation of the de.NBI network (D. Wibberg)
  • 11:00-12:00  Keynote: Using genomic tools to unravel coral holobiont complexity
                          and potential for adaptation     (M. Ziegler)
  • 12:00-13:00  Lunch break
  • 13:00-14:00  Keynote: Sequencing technologies (T. Hain, J.P. Mengel, B.Ott)
  • 14:00-14:15  Break
  • 14:15-16:15  From raw data to feature tables (S. Janssen, S. Jaenicke)
  • 16:15-17:00  Break
  • 17:00-18:00  Keynote: Advancing microbiome research through Qiita (A. Gonzalez)

Tuesday, 05.10.2021

  • 10:00-12:00  Assessing biodiversity (alpha/beta) (S. Janssen)
  • 12:00-13:00  Lunch break
  • 13:00-13:30  Statistical testing (S. Janssen)
  • 13:30-13:45  Break
  • 13:45-15:00  Tools for taxonomic classification (S. Jaenicke)
  • 15:00-16:00  MGX (S. Jaenicke)

Wednesday, 06.10.2021

  • 10:00-12:00  Metagenome assembly (A. Sczyrba, N. Kleinbölting)
  • 12:00-13:00  Lunch break
  • 13:00-14:00  Binning into MAGs (A. Sczyrba, N. Kleinbölting)
  • 14:00-14:45  Annotation & evaluation of MAGs (A. Sczyrba, N. Kleinbölting)
  • 14:45-15:00  Break
  • 15:00-16:00  Keynote: Critical assessment of metagenome interpretation - CAMI2 (A. McHardy)

Thursday, 07.10.2021

  • 10:00-11:00  Keynote: S. Sunagawa
  • 11:00-11:15  Break
  • 11:15-13:00  Taxonomic profiling of shotgun metagenomes (G. Zeller, A. Milanese)
  • 13:00-14:00  Lunch break
  • 14:00-14:30  Taxonomic profiling of shotgun metagenomes (G. Zeller, A. Milanese)
  • 14:30-15:15  Comparative metagenome analysis (G. Zeller)
  • 15:15-15:30  Break
  • 15:30-17:00  Comparative metagenome analysis (J. Wirbel)

Friday, 08.10.2021

  • 10:00-11:00  Introduction in analyzing microbial communities by metaproteomics (D. Benndorf)
  • 11:00-12:00  Identification of mass spectrometry data using the MetaProteomeAnalyzer (R. Heyer)
  • 12:00-13:00  Lunch break
  • 13:00-14:00  Taxonomic and functional comparison of human gut samples using the MetaProteomeAnalyzer
                          (R. Heyer)
  • 14:00-15:00  Biostatistical data evaluation and data visualization (R. Heyer)
  • 15:00-15:15  Break
  • 15:15-16:00  Keynote: Metaproteomics: where are we now? A community-driven evaluation of        
                          experimental and computational techniques (T. Muth)
  • 16:00-16:30  Closing remarks / Feedback questionaire (S. Jaenicke)

 

Requirements

Participants need:

  1. Basic knowledge in Linux/CLI
  2. Basic knowledge of executing programs on the command line (shell)
  3. Working knowledge of R

Registration

Sorry, we are booked out! Our summer school is limited to 20 participants! The registration is closed.

 

Keynote speakers

  • Dr. Maren Ziegler, Systematics and Biodiversity Lab, Justus Liebig University Giessen, Germany
  • PD Dr. Torsten Hain, Medical Microbiology, Justus Liebig University Giessen, Germany
  • PhD Antonio González Peña, University of California, San Diego, USA
  • Prof. Dr. Alice McHardy, Helmholtz Centre for Infection Research, Braunschweig, Germany
  • Prof. Dr. Shinichi Sunagawa, Department of Biology, ETH Zurich, Switzerland
  • Dr. Thilo Muth, Bundesanstalt für Materialforschung und -prüfung (BAM), Berlin, Germany

 

Summer School Instructors

  • Prof. Dr. Dirk Benndorf (Magdeburg, BiGi)
  • Prof. Dr. Alexander Goesmann (Giessen, BiGi)
  • Dr. Sebastian Jaenicke (Giessen, BiGi)
  • Prof. Dr. Stefan Janssen (JLU Giessen)
  • Dr. Nils Kleinbölting (Bielefeld, BiGi)
  • Kay Schallert (Magdeburg, BiGi)
  • Prof. Dr. Alexander Sczyrba (Bielefeld, BiGi)
  • Dr. Daniel Wibberg (Bielefeld, de.NBI Administration office)
  • Dr. Georg Zeller (Heidelberg, HD-HuB)

  • Dr. Robert Heyer (Magdeburg, BiGi) 

  • Jakob Wirbel (Heidelberg, HD-Hub)

  • Dr. Alessio Milanese (ETH Zürich)

 

For any further information, please contact the organizing commitee at

Background information about de.NBI can be found in a separate flyer.

 

Funding:
The de.NBI project is funded by the BMBF.
FKZ 031A532 — 031A540