On Friday 17 October 2014, representatives from ELIXIR will be taking part in a RDA (Research Data Alliance) Europe Workshop on Data Sharing and Interoperability in Brussels. Further information about the event can be found on the RDA Europe website.
Collacated alongside this workshop ELIXIR, BioMedBridges and RDA are organising a one day vocabulary workshop on Thursday 16 October 2014 with the aim of agreeing a common vocabulary to classify resources in the life science domain. Further information about this workshop can be found here.
The 9th CFGBC Symposium will take place in Ljubljana on October 17th, 2014, co-organised by ELIXIR.SI.
The symposium will cover topics such as the various applications of bio-chips, next generation sequencing, functional genomics and computational biology with a specific focus on gaining in-depth knowledge of diseases.
If you are interested in attending the event you can register on the CFGBC website
A one day workshop organised by ELIXIR, BioMedBridges,and RDA to kick-start agreement on a common topics vocabulary to classify resources in the life sciences domain, including databases, tools, courses, training materials, meetings, jobs and publications will take place in Brussels on Thursday, 16 October 2014: one day before the collocated RDA Europe Workshop about Data Sharing and Interoperability.
Service providers and registries use different vocabularies to classify resources. From the user point of view, a common topics vocabulary would enhance the ability to find related resources of interest. From the provider point of view, a common vocabulary would be an important step to facilitate the interoperability of existing resources.
Directions: between the meeting venue, hotel and dinner venue can be found here.
During the workshop we will:
- Agree high-level terms for general topics: the foundation of a common vocabulary in biological and biomedical science and bioinformatics
- Discuss use cases and how this vocabulary will make an impact in our community
- Discuss a publication on the common vocabulary with potential authors
Further, we will seek to assemble a coalition of resources, to seek funding to adopt and develop this vocabulary in support of resource integration and discovery, with concrete commitments to:
- Promote the use of this vocabulary within your infrastructure, institute, project etc., and beyond,
and, subject to resource constraints:
- Adopt the vocabulary within your own resources, e.g. for purposes of annotation, search / browsing and sharing data
- Develop the vocabulary going forward, building on the foundation agreed during the workshop.
Arrival and registration
10:30 - 11:00 | Coffee and biscuits
Chair: Francis Rowland
11:00 - 11:05 | Welcome (Niklas Blomberg)
11:05 - 11:15 | Aims of the workshop (Rafael Jimenez)
11:15 - 11:30 | Introductions
11:30 - 13:00 | 5’ Lightning talks (BioSharing et al. - tbd)
13:00 - 13:30 | Lunch
Chair: Simon Jupp
13:30 - 14:00 | Presentation
“Mapping of topics from providers and registries” (Cath Brooksbank)
14:00 - 16:30 | Group hands-on (over coffee)
- Root vocabulary: high-level topics
- Topic branches: fine-grained topics
16:30 - 16:45 | Coffee
Agreement on a common topics vocabulary
Chair: Stephanie Suhr
16:45 - 17:30 | Discussion
Agreement on a common topics vocabulary (Jon Ison)
- Commitments to promote, adopt, develop the vocabulary
- Practical issues around adoption and maintenance
Future development and funding
Chair: Carole Goble
17:30 - 17:50 | Presentation
“Contextualising resources in the life sciences domain using minimal metadata” (Susanna-Assunta Sansone)
17:50 - 18:00 | Introduction to the Panel Discussion
“Exploring funding strategies to adopt and develop the common topics vocabulary in support of integration and discovery of resources” (Niklas Blomberg)
18:00 - 19:00 | Panel Discussion
Vocabulary and metadata use-cases and impact
Assembling a coalition of resources : confirming commitments including publication and funding proposal
20:30 - Dinner (own expense)
Venue: Media room of L'Ultime Atome (Sint-Bonifaasstraat 14 Rue Saint-Boniface, 1050 Bruxelles).
- Janet Thornton (EMBL-EBI, BioMedBridges)
- Niklas Blomberg (ELIXIR)
- Søren Brunak (ELIXIR-DK, BioMedBridges, ELIXIR/BioMedBridges Services Registry, CBS-DTU tools)
- Carole Goble (ELIXIR-UK, ISBE, TeSS, Fairport, myExperiment, SSI, BioCatalogue, SEEK4Science, FAIRDOM)
- Rob Hooft (ELIXIR-NL, NLeSC, DTL, Fairport)
- Inge Jonassen (ELIXIR-NO, University of Bergen)
- Heinz Stockinger (ELIXIR-CH, SIB, ExPASy)
- Terri Attwood (ELIXIR-UK, BioDBCore, EMBnet, GOBLET, iAnn, ISCB, ISB, AllBio, SeqAhead, TeSS)
- Cath Brooksbank(ELIXIR-UK, EMBL-EBI, EMTRAIN, GOBLET, on-course, TeSS)
- Manuel Corpas (ELIXIR-UK, BioJS, GOBLET, iAnn, ISCB, TeSS)
- Vassilios Ioannidis (ELIXIR-CH, SIB, ExPASy)
- Hervé Ménager (Institut Pasteur, BioWeb2, Mobyle)
- Helen Parkinson (EMBL-EBI, BioMedBridges, ELIXIR/BioMedBridges Services Registry)
- Francis Rowland (EMBL-EBI, BioJS)
- Susanna-Assunta Sansone(ELIXIR-UK, BioDBCore, BioSharing, ISA Commons, TeSS; RDA TAB)
- Vicky Schneider(ELIXIR-UK, EMBnet, GOBLET, iAnn, TeSS)
- Jon Ison(ELIXIR-DK, ELIXIR/BioMedBridges Services Registry, EDAM, Tools@EBI
- Rafael Jimenez (ELIXIR Hub)
- Stephanie Suhr (EMBL-EBI, BioMedBridges)
A workshop on HPC for Health Research will take place in Brussels on 1-2 Oct 2014, jointly organised by DG Connect and DG Research. Peter Longreen of the Danish ELIXIR Node will be taking part as a panelist at the workshop, representing ELIXIR.
More information about the event can be found here: https://ec.europa.eu/digital-agenda/news-redirect/17279
Co-located with the Research Data Alliance 4th Plenary Meeting, the 3rd EUDAT Conference will take place in Amsterdam on the 24-25 September 2014, addressing topical themes in the area of data infrastructure. Representatives from a number of ELIXIR Nodes will take part.
Further information about the event and registration can be found on the EUDAT website.
The XII Symposium on Bioinformatics will take place on 21-24 September in Sevilla, Spain co-organised by ELIXIR Partners CNIO. Further information about the event can be found here:
A joint workshop with TransPLANT to discuss future opportunities in plant/crop informatics took place in Hinxton, Cambridge on 1-2 July. The talks given are available below
Paul Kersey, Plant bioinformatics (.pdf)
Jean-Francois Gibrat, ELIXIR France and plants (.pdf)
Fabio Fiorani, European Plant Phenotyping Network (.pdf)
Andy Smith and Rafael Jimenez, ELIXIR governance and technical update (.pdf)
Jan-Peter Nap, Needs of the Plant Research Community - a Dutch perspective (.pdf)
Klaus Mayer, MIPS PlantsDB (.pdf)
Niklas Blomberg, ELIXIR Programme and pilots (.pdf)
Paweł Krajewski, Institute of Plant Genetics (.pdf)
Mario Caccamo, TGAC and plant sciences (.pdf)
Antoine Janssen, keyGene (.pdf)
Hadi Quesneville, plant sciences(.pdf)
Ziva Ramsak, agricultural informatics (.pdf)
Chris Rawlings, Big data in the agricultural and ecological sciences (.pdf)
Natalie Riviere, Biogemma (.pdf)
The 14th SocBiN (Society for Bioinformatics in Northern Europe) annual conference in bioinformatics will take place June 11-13 in Oslo, Norway. The event is co-organized by the Norwegian Bioinformatics Platform and ELIXIR Norway. Further information can be found here.
ELIXIR will be presenting on data management challenges in the life sciences at the e-IRG workshop in Athens on 9-10 June. The workshop is being held as part of the consultation process for the Horizon 2020 e-infrastructure Work Programme.
The slides presented at the events are available here.
A “Clinical Research Informatics’ Solution Days” workshop will be held on the 26th & 27th May in Duesseldorf, Germany, organised by ECRIN and other EU-funded projects.
During the workshop an overview of IT-tools and services for modern Clinical Studies will be given. The tools and services will also be demonstrated in interactive hands-on sessions.
Registration for the workshop is possible from now on at following web site: http://www.clinical-research-informatics.com/.
The workshop programme and additional information can also be found on in the web site.