EMBnet Multidisciplinary Initiatives
CHARME COST Action – Harmonising standardisation strategies to increase efficiency and competitiveness of European life-science research (2016-2020)
The COST Action CHARME goal was to bridge and combine the fragmented areas of standard production for biological data to achieve a breakthrough in standardisation efforts. CHARME identified needs and gaps, teaming up with other initiatives and organisations to avoid duplication and overlap of standardisation activities. Only through a common, coordinated, long-term strategy, by active involvement of all stakeholders (from research, industry and policy), can standards be successfully assimilated into the daily workflow and thus increase the efficiency and competitiveness of European life-science research.
- Hollmann S, Regierer B, Bechis J, Tobin L, D’Elia D. Ten simple rules on how to develop a stakeholder engagement plan. PLoS Comput Biol. 2022 Oct 13;18(10):e1010520. doi: 10.1371/journal.pcbi.1010520.
- Hollmann S, Kremer A, Baebler S, Trefois C, Gruden C, Rudnicki WR, Tong W, Gruca A, Bongcam-Rudloff E, Evelo CT, Nechyporenko A, Frohme M, Safranek D, Regierer B, D’Elia D (2021) The need for standardisation in life science research – an approach to excellence and trust. F1000Research, 9:1398. https://doi.org/10.12688/f1000research.27500.2
- Hollmann S, Frohme M, Endrullat C, Kremer A, D’Elia D, Regierer B, Nechyporenko A; Cost Action CA15110. Ten simple rules on how to write a standard operating procedure. PLoS Comput Biol. 2020 Sep 3;16(9):e1008095. https://doi.org/10.1371/journal.pcbi.1008095Susanne Hollmann, Babette Regierer, Domenica D’Elia, Kristina Gruden, Špela Baebler, Marcus Frohme, Juliane Pfeil, Ugur Sezerman, Chris T Evelo, Friederike Ehrhart, Berthold Huppertz, Erik Bongcam-Rudloff, Christophe Trefois, Aleksandra Gruca, Deborah A. Duca, Gianni Colotti, Roxana Merino-Martinez, Christos Ouzounis, Oliver Hunewald, Feng He and Andreas Kremer (2018) Standardisation in Life-science Research – Making the Case for Harmonization to Improve Communication and Sharing of Data amongst Researchers. Web proceedings papers. Springer in Communications in Computer and Information Science Series (CCIS), ISSN: 1865:0929, vol. 13:149-159
- Susanne Hollmann, Teresa K. Attwood, Erik Bongcam-Rudloff, Deborah Duca, Domenica D’Elia, Christoph Endrullat, Marcus Frohme, Katrin Messerschmidt, Babette Regierer. Standardization and Quality Assurance in Life-Science Research – Crucially Needed or Unnecessary and Annoying Regulation?I n: Kalajdziski S., Ackovska N. (eds) ICT Innovations 2018. Engineering and Life Sciences. ICT 2018. Communications in Computer and Information Science, vol. 940. Springer, Cham. https://doi.org/10.1007/978-3-030-00825-3_2
SeqAhead (2011-2014)
Next-Generation Sequencing Data-Analysis Network (COST Action BM1006). SeqAhead organised more than 30 workshops, four conferences with more than 150 participants each, and several schools, each with 25-60 students. In total, almost 2,000 scientists participated in these activities, the impact of which has been immediate for NGS research in Europe, and will continue to be felt for many years. SeqAhead partners have published about 100 articles on NGS and related topics.
SeqAhead meetings led to the formation of several large European collaborations, such as the AllBio project and the COST Action CHARME. Members of SeqAhead also won an IRSES Marie Curie project aiming to create an NGS network between the Americas and Europe.
AllBio (2011-2014)
Broadening the bioinformatics infrastructure to unicellular, animal and plant science (Coordination Action KBBE.2011.3.6-02). KBBE.2011.3.6-02: Supporting the development of Bioinformatics Infrastructures for the effective exploitation of genomic data: Beyond health applications. This Coordination and Support Action concerted the efforts of 10 bioinformatics academic institutes to generalise and broaden the applicability of the many existent human-centric bioinformatics facilities to life-science research fields related to unicellular organisms, plants and animals. AllBio triggered the establishment of the recently initiated EU project PROLIFIC3.
GOBLET
Global Organisation for Bioinformatics Learning, Education & Training. In June 2012, as part of its AGM, EMBnet spear-headed a new international alliance with ISCB, ISB, APBioNet, ASBCB, SoIBio, NBIC, BTN, EBI and SeqAhead to establish GOBLET. Now a legal foundation.