The next issue of ÄBC2 will take place in the context of ISMB/ECCB 2019 in Basel, Switzerland. Please come back for further information.
The 3rd Annual European Bioinformatics Core Community (ÄBC2) Workshop took place
Previously, this workshop was held at GCB 2016 (Berlin) and GCB 2017 (Tübingen). A similar workshop took place at ECCB 2016.
The number of bioinformatics core units in industrial and academic research environments is growing rapidly. This workshop provides a communication and exchange platform for scientific and service aspects of bioinformatics core units in Europe.
We look forward to keynote talks by Birte Kehr on linked-read data analysis and Florian Eggenohfer on reproducibility and the bioconda project. We will have a hands-on practical session, depending on your contributions, and we expect interesting break out sessions on methylome analysis, whole genome analysis, RNAseq ring trials and storage strategies.
Topics and who should attend
We address publicly used analysis infrastructures, bioinformatics service and research, as well as translational bioinformatics issues like integration of bio-banking, medical information (records) and the corresponding genomic information.
The topics discussed include, but are not limited to, ideas, new solutions and best practices in
Furthermore we cover the evolving relationship between research groups and core facilities and foster exchange on core unit organization and management, e.g. in areas like service and project management, scientific cooperation, bioinformatics teaching and bioinformatics career opportunities in core units.
Everyone working in a bioinformatics core unit or tasked with state-of-the art bioinformatics data analysis should not miss this event.
ÄBC2'18 is organized by
Share your experiences!
We are inviting the submission of talks on all aspects of bioinformatics core units, including scientific data analysis, data integration, administrative issues and much more.
For 2018, we are suggesting a number of focus topics that we believe to be of particular interest to the community:
Please note that this list is not exclusive, and you can still propose talks on any other topic relevant to core units!
To contribute, please prepare a short or extended abstract of your talk (1--3 pages) with your name(s), affiliation(s) and a summary of the points to be discussed. If there are more submissions than talk slots, the organizing committee will select talks based on perceived general interest and to balance different topics.
We are not looking for polished research papers, but for good and helpful ideas gained from practical experience and daily work.
There will be no published proceedings, although we may discuss at the workshop if we should send collected abstracts to a PrePrint server.
In the afternoon, we plan a practical session:
Please share your workflow with your peers and let them comment on it and gather feedback. We anticipate that we will be able to discuss a number of different workflows in small groups.
We will also have breakout groups to discuss topics of current interest Topics of discussion may include, but are not limited to:
Please send your contributions by email as a PDF attachment to email@example.com until September 10, 2018.
When, what and who?
|09:30||Arrival, registration, coffee||on site|
|10:20||Welcome address||the organizers|
|10:30||Session 1 (Keynotes and discussion)|
|10:30||Development of architecture for software containers - practical computational reproducibility for everyone||Florian Eggenhofer (Freiburg)|
|11:10||Barcode correction for linked-read sequencing data||Birte Kehr (BIH, Berlin)|
|11:45||Discussion: Are k-mer methods ready for production use?||Sven Rahmann (Essen)|
|12:20||Case study: Data management @QBIC||Sven Nahnsen (Tübingen)|
|13:00||Lunch break||on site|
|14:00||Session 2 (Contributed talks): Practical workflows and data management|
|14:00||Case study: Data management @CUBI||Dieter Beule (BIH, Berlin)|
|14:15||Containerized microservices on a Kubernetes cluster for browsing shared biomedical data||Michael Huttner (Regensburg)|
|14:35||The core facility "Computational Bioanalytics" at the Center for Medical Research||Andrea Groselj-Strele, Slave Trajanoski (Med U Graz)|
|14:50||Update on last year's RNA-seq ring trial||Dieter Beule (BIH, Berlin)|
|15:10||Coffee break||on site|
|15:40||Session 3: Parallel break-out groups||Moderator|
|1. Methylome analysis workflows||Sven Rahmann|
|2. Whole genome analysis: every read explained?||Sven Nahnsen|
|3. The storage conundrum||Dieter Beule|
|17:00||Presentation and discussion of BOG 1 results|
|17:20||Presentation and discussion of BOG 2 results|
|17:40||Presentation and discussion of BOG 3 results|
|18:00||End of workshop|
This schedule (updated: 25.09.2018) is final. Times are approximate.
How to find it
The workshop is part of the workshops of the German Conference on Bioinformatics (GCB) 2018 in Vienna.
The precise room for the workshop will be assigned and announced shortly before the meeting, depending on the number of participants.
Please see the venue information on the GCB website for more information.
Disclaimers and Data Privacy
www.aebc2.eu is the website of the Annual European Bioinformatics Core Community Workshop (ÄBC2). The website is published by the organizers, namely Dieter Beule (BIH Berlin), Szymon Kielbasa (Leiden University Medical Center), Sven Nahnsen (Tübingen), Sven Rahmann (University of Duisburg-Essen), and Daniel Stekhoven (ETH Zürich).
Although the organizers take all possible care to ensure the correctness of published information, no warranty can be accepted regarding the correctness, accuracy, uptodateness, reliability and completeness of the content of this information.
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