The aim of this 3-day workshop, hosted by the German Network for Bioinformatics Infrastructure (de.NBI), will be to give students a brief overview of the tools and bioinformatics techniques available for the analysis of next generation sequence (NGS) data from microbial communities. The format will comprise a mixture of lectures and hands-on tutorials where students will process example data sets in real-time in the de.NBI cloud environment.

 

  Date: 9. - 11.10.2019 Bielefeld 
  Location: Bielefeld University, Universitätsstr. 25, 33615 Bielefeld
  Venue: Main building (UHG) V6-116

A brief agenda is available here (subject to change).

The aim of this 3-day workshop will be to give students a brief overview of the tools and bioinformatics techniques available for the analysis of next generation sequence (NGS) data from microbial communities. The format will comprise a mixture of lectures and hands-on tutorials where students will process example data sets in real-time in the de.NBI cloud environment. After covering general aspects of sequence based analysis (e.g. pre-processing, quality measurements, error handling, and so on) the course is divided into two parts: targeted (16S rRNA gene amplicons) and untargeted (whole-genome shotgun; WGS) metagenome analysis. On demand, a compact introduction into the Linux operating system and the usage of the command line interface will be given upstream to the introducing part to guarantee a consistent baseline for the following lectures. The main aspects of the 16S part are the common pipeline steps beginning with pre-processing and filtering followed by OTU clustering, taxonomic classification, and different statistical measurements. Then, the new ASV/zOTU approach will be introduced followed by similar statistics and both approaches discussed with the attendants in conclusion. In the third part, advantages and disadvantages of whole metagenome sequencing will be illustrated. As WGS metagenomics has the potential to address the full spectra of genome-based issues, the focus here will be on taxonomic and functional analysis with the aid of different bioinformatic tools. Two different techniques to analyze WGS metagenome data are part of this section: (1) in the read-based approach the software solution MGX, an integrated platform for metagenome analysis and data visualization, will be demonstrated. (2) the assembly-based approach to potentially recover near-complete genome by assembling reads into contigs which are subject to binning methods to group individual contigs into genome bins.


 


 

Please send your application to This email address is being protected from spambots. You need JavaScript enabled to view it.eld.d (subject MG­course2019) including a short motivation, a few words about your background, your level of experience on the command line (Linux/Unix), and your experience within the field of metagenomic analysis and related bioinformatic tools. There will be no participation fee, yet travel and accommodation expenses need to be paid by the participants.

 

  Registration: Email to This email address is being protected from spambots. You need JavaScript enabled to view it. (subject MG-­course2019)
  Deadline: 30.09.2019

 

Please not that participation to this course does not depend on the actual Linux experience of the applicant. Both, experienced as well as inexperienced Linux users are encouraged to submit an application. However, the Linux introducing session in the morning of the first day is optional only for applicants fulfilling the Linux prerequisite.


 

Travel advices:


Accommodation advices:

The City of Bielefeld provides an Online booking system for hotels on their website.

Below are contact details for a selection of hotels in Bielefeld. Participants will need to make their own reservations directly with the hotel. 

Hotel Bielefelder Hof (ehemals Mövenpick)

Am Bahnhof 3
33602 Bielefeld
Telefon: 0521-52820
Telefax: 0521-5282100
E-Mail:This email address is being protected from spambots. You need JavaScript enabled to view it.
Homepage: http://www.bielefelder-hof.de/
Map

Arcadia Hotel Bielefeld

Niederwall 31-35
33602 Bielefeld
Telefon: 0521-52530
Telefax: 0521-5253444
E-Mail: This email address is being protected from spambots. You need JavaScript enabled to view it.
Homepage:http://www.arcadia-hotel.de/bielefeld/the-hotel.html
Map

Standard single room: 100€, including breakfast

Distance to the venue: 4,3 km, excellent tram connection

Hotel Mercure

Waldhof 15
33602 Bielefeld
Telefon: 0521-52800
Telefax: 0521-5280113
E-Mail: This email address is being protected from spambots. You need JavaScript enabled to view it.
Homepage:http://www.mercure.com/de/hotel-0897-mercure-hotel-bielefeld-city/index.shtml
Map

Distance to the venue: 4 km, good tram connection

Park Inn Bielefeld

Am Johannisberg 5
33615 Bielefeld
Telefon: 0521-92380
Telefax: 0521-9618333
E-mail: This email address is being protected from spambots. You need JavaScript enabled to view it.
Homepage: http://www.park-inn-bielefeld.de/
Map

Standard single room: approx. 97€, including breakfast

Distance to the venue: 3,4 km, no tram connection, good on-site parking

Comfort Garni Hotel Stadt Bremen

Bahnhofstraße 32
33602 Bielefeld
Telefon: 0521-521980
Telefax: 0521-52198 113
E-Mail: This email address is being protected from spambots. You need JavaScript enabled to view it.
Homepage: http://www.comfort-garni.de/

Standard single room: 77€, including breakfast

Distance to the venue: 3,9 km, very good tram connection

Brenner Hotel Diekmann

Otto-Brenner-Str. 133-135
33607 Bielefeld
Tel: 0521/2999-0
Fax: 0521/2999-220
E-Mail: This email address is being protected from spambots. You need JavaScript enabled to view it.
Homepage: www.brenner-hotel.de

Altstadt-Hotel

Ritterstraße 15
33602 Bielefeld
Tel: 0521/96725-0
Fax: 0521/96725-445
E-Mail: This email address is being protected from spambots. You need JavaScript enabled to view it.
Homepage: http://www.altstadt-hotel-bielefeld.de/

Jugendgästehaus Bielefeld [Youth Hostel Bielefeld]

The modern Youth Hostel offers cheap accomodation starting at 24,50 euros. Guests of Bielefeld University don't need a DJH-pass for making reservations.

Jugendgästehaus und Bildungszentrum Bielefeld gGmbH
Hermann-Kleinewächter-Str. 1
33602 Bielefeld
Tel.: 0521-52205-0
Fax: 0521-52205-110
E-Mail: This email address is being protected from spambots. You need JavaScript enabled to view it.
Homepage: http://www.djh-wl.de/bielefeld

Standard single room: 54€ per person, including breakfast
Standard double room: 37€ per person, including breakfast

Distance to the venue: 4,6 km, good tram connection