Transcript PowerPoint-Presentation

3rd Annual Forum for SMEs: Meeting Overview
Dominic Clark,
Industry Programme Manager,
[email protected].
http://www.ebi.ac.uk/industry
EMBL-EBI’s mission
• To provide freely available data and bioinformatics
services to all facets of the scientific community in ways
that promote scientific progress
• To contribute to the advancement of biology through
basic investigator-driven research in bioinformatics
• To provide advanced bioinformatics training to scientists
at all levels, from PhD students to independent
investigators
• To help disseminate cutting-edge technologies to
industry
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What Technologies?
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Bioinformatics resources
Literature resources
Cheminformatics resources (ChEBI, CDK)
ChemoGenomics resources (ChEMBL)
Knowledge management technologies and standards
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Databases: molecules to systems
Genomes
Ensembl
Ensembl Genomes
EGA
Nucleotide sequence
EMBL-Bank
Literature and ontologies
CiteXplore, GO
Protein families,
motifs and domains
InterPro
Microarray & gene
expression data
ArrayExpress
Protein interactions
IntAct
Protein structure
ePDB
Pathways
Reactome
Proteomes
UniProt, PRIDE
Chemical entities
ChEBI, ChEMBL
Systems
BioModels
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Industry is a broad term
• Business Focus
• Pharmaceuticals/Drug
Discovery
• Biotechnology companies
• Diagnostics
• Imaging
• Agriculture and Agrochemicals
• Livestock breeding
• DNA forensics
• Microbial genomics
• Bioprocessing
• The food industry
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• Size
• Large Multinationals
• SMEs
How do we SMEs, generically?
• All EMBL-EBI data resources and services are freely
available to industry stakeholders in the same way as
they are freely available to members of the academic
research community. They can be searched, downloaded
in their entirety etc.
• Furthermore, SMEs may attend all EMBL-EBI training
courses on a similar cost basis as academic researchers.
For details of the current list of courses, see:
www.ebi.ac.uk/training/handson/
• We organise workshops to which SMEs are invited:
• NextGen Sequencing (29th October 2009)
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How else do we support SMEs?
• For SMEs, we provide an annual information forum at
various locations within Europe. This is customised to the
particular interests of SMEs.
• 2007: Hinxton, Cambridge, UK.
• 2008: Berlin.
• 2009: Vienna!
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SME Information Workshop
• The workshop will provide the opportunity to introduce the
tools and data resources that are available and the
opportunities for SMEs to use and integrate these
resources in order to derive benefit from the existing and
developing infrastructure.
• The topics of the workshop have been specifically
selected on the basis of previous interactions with SMEs
and include chemogenomics, cheminformatics,
proteomics, text mining, literature services and analysis,
web services and patent services providing by EMBL-EBI
and the European Patent Office, with whom we
collaborate.
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SME Meeting Agenda, 3rd September 2009
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Time
Item
12.00
Registration and refreshments
13.00
Welcome (Nina Sallacz, Technology & Innovation, Austria Wirtschaftsservice)
13.10
Meeting Overview (Dominic Clark, EMBL-EBI)
13.20
Overview of EMBL-EBI data resources and services (Dominic Clark, EMBL-EBI)
13.40
EMBL-EBI Proteomics data resources and services (Henning Hermjakob, EMBL-EBI)
14.10
ChEMBL databases and tools: Support of target selection and validation (John Overington, EMBL-EBI)
14.40
EMBL-EBI text mining tools and mapping of targets/pathways to
disease (Dietrich Rebholz-Schuhmann, EMBL-EBI)
15.10
COFFEE BREAK
15.40
Using Web services in Your Data Analysis Pipeline (Erik Bongcam-Rudloff, U. Uppsala)
16.10
The FuncNet platform (Andrew Clegg, UCL)
16.40
ENFIN – Data integration with EnVISION (Henning Hermjakob, EMBL-EBI)
17.10
In-silico Workflows for Biomarker and Target Identification. (Bernd Mayer, Emergentec Biodevelopment GmbH,
Vienna).
17.40
Met and Unmet Bioinformatics needs in Targeted Metabolomics. (Klaus M Weinberger, Biocrates Life Sciences AG,
Innsbruck).
18.10
Close of first day
18.20
Networking Buffet Supper
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SME Meeting Agenda 4rd September 2009
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09.00
Introduction to the second day & overview of ELIXIR Industry Stakeholders report (Dominic Clark, EMBL-EBI)
09.10
EMBL-EBI Literature Services and Applications (Jo McEntyre, Head of Literature Services, EMBL-EBI)
09.40
EMBL-EBI Patent related services (Jennifer McDowell, EMBL-EBI).
10.10
EPO Services and Resources for SMEs and the FELICS project (Stephane Nauche, European Patent Office)
10.30
Patent Information (http://www.epo.org/patents/patent-information/about.html), The European Patent Office Open
Patent Services Nigel Clarke (European Patent Office, Austria)
11.00
COFFEE
11.30
Patent Information: esp@cenet
(http://www.espacenet.com) Nigel Clarke (European Patent Office, Austria)
12.00
How the EPO searches prior art in Biotech; European Patent Academy and dissemination of knowledge
(Titus Vogt, European Patent Office)
12.30
Cheminformatics resources and services at EBI (Paula de Matos, EMBL-EBI).
12.55
Patent and Licensing Management (Angela Siegling)
13.05
Wrap up and discussion (Pascal Kahlem, EMBL-EBI)
13.20
LUNCH and end of meeting
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Acknowledgements
• The workshop is sponsored by a number of EU projects coordinated
by EMBL-EBI that are targeted to provide bioinformatics tools and
data resources for European research. These include:
• ENFIN NoE
• EMBRACE NoE
• CALBC project
• SLING project (formally FELICS)
• ELIXIR project
• We would like to thank everyone involved in the preparation of the
agenda (Pascal Kahlem, Nina Sallacz, Stéphane Nauche, Holly
Edwards)
• We would like to thank all the speakers.
• We are grateful to AWS (Nina Sallacz and colleagues) for their
support and for hosting the meeting.
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Thank You
Any Questions?