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2019 Galaxy Community Conference (GCC2019)
Freiburg, Germany, 1-6 July 2019
#usegalaxy / Chat

We are pleased to announce that GCC2019 will be held in Freiburg, Germany, 1-6 July. Like previous Galaxy Community Conferences, GCC2019 will feature invited keynotes, accepted talks, posters, and demos, birds-of-a-feather gatherings, multiple days of collaborative work, and plenty of opportunities to network with your fellow data-intensive researchers and practitioners. If you are working in data-intensive life science, there is no better place to be.

Location: 
Freiburg is on the edge of the Black Forest, and is famous for its architecture, cobblestone streets and historic districts, and is home to one of Germany's oldest universities (and our host)!. Freiburg is in the Baden wine-growing region and is the sunniest city in Germany.
GCC2019 will be held at Konzerthaus Freiburg in central Freiburg, adjacent to the Freiburg train station.

Hosts:  
GCC2019 is hosted by the Freiburg Galaxy Project, the University of Freiburg, and de.NBI (the German Network for Bioinformatics Infrastructure).

More Information:
https://galaxyproject.org/events/gcc2019/

Mon 15 October 2018, 11:00 to Tue 16 October 2018, 13:00 GMT - Frankfurt, Germany

This free ELIXIR Innovation and SME Forum on Data Driven Innovation in Industrial Biotechnology in Frankfurt is open to both large and small companies and aims to inform about ELIXIR resources and create a space to network for industry and academia.

In this lunch-to-lunch event, attendees will be immersed in a world of data-driven innovation, illustrated through talks. With a mix of high-level keynote speakers and interactive sessions, this event will allow you to discuss and interact with other companies and ELIXIR partners. A specific session with Flash Talks, will give new companies the chance to introduce their work to a broad audience.

This event programme is organised in cooperation with de.NBI, ELIXIR Europe, and DECHEMA and is free and open to all companies in Germany and beyond.

What is on the programme? Sessions include:

- Big Data Challenges and Opportunities
- Data driven Biotechnology in Germany and Europe
- Services offered by de.NBI and ELIXIR
- Flash Talks from companies showcasing their products

Complete programme here

Speakers included but not limited to:

- Alf Puehler, Head of de.NBI
- Bertram Weiss, Head of Bioinformatics Bayer AG
- Elizabeth Reynolds, Founder & Director General Bioinformatics
- Klaus Mauch, Board member of DECHEMA/CEO of Insilico Biotechnology AG
- Catherine Sirven, Scientist, Bayer Crop Science France
- Martin Eisenacher,  Medical Bioinformatics, Ruhr University Bochum
- Uwe Scholz, Institute for Plant Genetics and Crop Plant Research Gatersleben 

For whom? This event is aimed at companies active in industrial biotechnology, bio-data, software companies working with data and tools in life sciences and all research institutes active in the field of data science in all life science domains.

Meet and greet: In addition to coffee breaks and lunches, you are invited to attend the dedicated networking buffet dinner on the 15th of October.

Registration here

Introduction
The German Network for Bioinformatics Infrastructure - de.NBI and Helmholtz-Centre for Environmental Research – UFZ invites you to participate to the 3rd International Metaproteome Symposium with the topic “Microbiome Research and Integrating Metaproteomics into a Multi-Omics Pipeline”.

The symposium is the leading event in the field of metaproteomics with an average of around 60 attending international scientists.

Research examining microbiomes are currently exploding and results are providing new perspectives. Multi-omics analysis is accepted as the gold standard to assess the microbiome samples but a variety of analytical and bioinformatics approaches are available. Therefore, we think the symposium will be a great opportunity to broaden the discussion on the integration of different datasets in different areas of microbial ecology and maybe learn from other people's experience on different systems. Apart from description of biological samples using Multi-Omics, we are interested in developing ideas how to integrate metaproteome data.

Lennart Martens (Ghent), Sergio Uzzau (Porto Conte Ricerche), Dirk Benndorf (Magdeburg) and Paul Wilmes (Luxembourg) are in the scientific committee.

We hope to welcome you from 03.-05.12.2018 in Leipzig at the UFZ!
Please use the links for more information, our competition, keynote speakers, on how to submit an abstract (oral or poster), important dates, or just send us an e-mail if you want to know more.

General Information
Contest: Multi-Omics study of microbiome samples
The success of protein identification in metaproteomics relies on whole genome sequencing. Therefore, multi-omics analysis is accepted as the gold standard to assess the microbiome samples in-depth. Thus, a variety of analytical and bioinformatics approaches are available.

Therefore, the scientific committee decided to announce a cooperate study of two microbiome samples. The results will be discussed in a workshop during the 3rd Metaproteomics Symposium. A final collaborate publication is anticipated. All labs working in the fields of Meta-Omics are invited to participate unless they are working only in Metagenomics, Metatranscriptomics, Metaproteomics, or Bioinformatics.

The combined study should target the following issues

- sample preparation (Multi-Omics protocols versus specialized protocols)
- impact of sequencing methods and sequencing depth on metaproteomics
- impact of processing methods and processing state of metagenome and metatrancriptome sequences (reads, contigs, gene prediction, binning) on metaproteomics
- impact of mass spectrometers types and measurement strategies (data-dependent versus data-independent, non-targeted versus targeted) on protein identification
- bioinformatics workflow for protein identification, inference and annotation
- suitability of metaproteome data to assist processing and annotation of sequencing data (proteogenomics)
- bioinformatics tools for visualization and comparison of multi-omics data

Samples

Sample 1 (provided by UFZ): defined mixed culture from a lab-scale bioreactors consisting of 8 sequenced microbes (SIHUMI)
Sample 2 (provided by de.NB/BIGI/OVGU): fecal sample from human gut, a minimal metagenome (reads, contigs) is provided

Conditions

- participants send a request to Dirk Benndorf (This email address is being protected from spambots. You need JavaScript enabled to view it.) or Nico Jehmlich (This email address is being protected from spambots. You need JavaScript enabled to view it.)
- after registration the samples and access to a platform for data exchange will be provided
- raw data has to be submitted to the data exchange platform until September 30th, processed data until Nov 30th (this allows other participants to apply the data in bioinformatics workflows)
- all participants with submitted data are invited to present the highlights of their results in a workshop (short presentation, 5-10 min)

Publication of results in a Special Issue of Microorganisms

- only participants with submitted data are accepted
- all participants are invited to submit a dataset brief
- for each sample a full paper merging the data will be prepared
- finally a review discussing major outcomes will be prepared

For more information: https://www.ufz.de/index.php?en=44235