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OSFair2017 Workshop | The ELIXIR view of Open Science

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Thanasis Vergoulis presents ELIXIR, an intergovernmental organisation aiming to
coordinate, integrate and sustain bioinformatic resources across Europe | OSFair2017 Workshop

Workshop title: Open Science as a service: tools for research communities

Workshop overview:
The aim of this workshop is to work with research communities especially interested/relevant to open science publishing paradigms: publishing of literature, datasets, methods, and experiments for reproducibility and transparent assessment of science. This will be an interactive session with communities presenting their requirements and current tooling to identify overlaps, better and cost-effective solutions.

When: DAY 2 - PARALLEL SESSION 3

Published in: Science
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OSFair2017 Workshop | The ELIXIR view of Open Science

  1. 1. THE ELIXIR VIEW OF OPEN SCIENCE Thanasis Vergoulis "Athena" RC, Greece
  2. 2. OUTLOOK ➤ ELIXIR is an intergovernmental organisation aiming to coordinate, integrate and sustain bioinformatic resources across Europe ➤ Founded in 2014 & partly funded by EC (RI - Horizon2020) ➤ 22 countries-members ➤ 180+ research organisations ➤ Coordinator: EMBL’s EBI ➤ Researchers across whole Europe
 to take advantage of the outcomes. datasets tools comp. services interoperability training
  3. 3. SCIENTIFIC PROCESS Observation Theory Experiment (in silico) Publication perform comp. analysis on new dataset or perform new comp. analysis on old dataset … journals are preferable Articles Tools Datasets
  4. 4. SCHOLARLY COMMUNICATION PRACTICES Tools - Perl, Python, R; also Web apps (PHP) - Many open source (github) - Workflows (Galaxy, Taverna) Articles - OA very usual - promotion by prestigious journals - Supplementary data (tables, figures, text) - MEDLINE / PubMed (open PMC) Datasets - Files, databases; interlinking (usually w/o using standards) - Mandatory for reproducibility - Versioning is important in many cases bio.tools (https://bio.tools/) - Tools registry (>6100 tools) - Free content (CC BY-SA 4.0) - Connection with publications - Use EDAM for descriptions - Incorporation of tool benchmarking & service monitoring
  5. 5. SCHOLARLY COMMUNICATION DESIDERATA ➤ Handling multiple dataset versions ➤ Need for indicative qualitative measures ➤ Vast amount of articles published annually ➤ Publish or perish? ➤ A large portion of them is problematic or erroneous ➤ Counting citations is not enough ➤ Many interesting quality aspects ➤ Visit BiP! finder poster for details!
  6. 6. More info: https://www.elixir-europe.org/ vergoulis@imis.athena-innovation.gr

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