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Outline. Presentation of Partners Short Introduction to the Project: Motivation, Concept, Objectives, Approach, Tangible Outcomes, Summary of Evaluation Comments. OpenScienceLink Consortium. OpenScienceLink Short Introduction to the Project. OpenScienceLink in Brief. - PowerPoint PPT PresentationTRANSCRIPT
OpenScienceLink OpenScienceLink General Intro, July 2013
July 2013
OpenScienceLink General Intro
CIP-ICT PSP-2012-6ICT PSP Main Theme: Open Data and Open Access to Scientific Information
OpenScienceLink OpenScienceLink General Intro, July 2013
Outline
• Presentation of Partners• Short Introduction to the Project: Motivation,
Concept, Objectives, Approach, Tangible Outcomes, Summary of Evaluation Comments
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OpenScienceLink OpenScienceLink General Intro, July 2013
OpenScienceLink ConsortiumPart. Participant organisation
nameShort Name
Country Expertise
1 Technische Universität Dresden TUD German
y
Bioinformatics, Semantic Search, Medical Experts,
Data and Text Mining
2 National Technical University of Athens NTUA Greece
Social Networks, Semantic
Reasoning, SOA 4 Lithuanian University of
Health Sciences LUHS Lithuania Medical Research
5 National and Kapodistrian University of Athens NKUA Greece Pharmacology
Research6 Katholieke Universiteit
LeuvenKU
Leuven Belgium IPR/Legal
7 Consiglio Nazionale Delle Ricerche CNR Italy Clinical Research
8 Procon Ltd. Procon Bulgaria Publisher
9 Transinsight GmbH TI Germany
Semantic Search, Text Mining, Data
Providers
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OpenScienceLink OpenScienceLink General Intro, July 2013
OpenScienceLinkShort Introduction to the Project
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OpenScienceLink OpenScienceLink General Intro, July 2013
OpenScienceLink in Brief
Open Semantically-enabled, Social-aware Access to Scientific DataDuration: 36 monthsICT PSP Main Theme identifier: THEME 2 - DIGITAL CONTENT, OPEN DATA AND CREATIVITY Objective 2.2: Open Data and open access to scientific information b) Open access to scientific informationBudget:
Commission contribution: 2,099,977 eurosTotal budget: 4,199,955 euros
Partners: 8
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OpenScienceLink OpenScienceLink General Intro, July 2013
OpenScienceLink LandscapeScientific Research Peer Review: biased; incomplete; slow
• often limited reviewers’ expertise in the specific field• time consuming access to scientific information (dispersed, unlinked and likely hidden)• review outcome: often poorly justified and subjective• limited pool of reviewers
Research evaluation metrics and systems vs actual quality, novelty and impact of the published work
• 15% of the journals’ scientific papers account for 50% of the citations• the dynamics of the field and of the citations as well as the source of the latter not taken into
consideration
Limited publishing and sharing of scientific data• Lack of motivation and means• No linking with related research conducted
Detection of trends in biomedical and clinical research• currently based on specific time snapshots of the research being conducted• excessive amount of dispersed scientific information published daily (at a variety
of data sources) which is difficult to access, comprehend, evaluate and link
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OpenScienceLink OpenScienceLink General Intro, July 2013
The Biomedical Landscape in particular
Research in
Biomedical and
Clinical Domain
Average Drug Development timeline: >10 years from basic research to market
High failure rate :5 in 5000 compounds that enter preclinical testing make it to human
testing1 out of the 5 ones tested in people is approved
Cost per drug candidate is more than € 900 million, with the greatest cost being failure.
New active ingredients reaching the patients yearly significantly decreasing: ~ 60/year (late 1980s), 52 (1991), 31 (2001), 20-25 (currently)
Drug Repositioning
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OpenScienceLink OpenScienceLink General Intro, July 2013
OpenScienceLink Overall Objectives
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• To introduce and pilot a holistic approach to the publication, sharing, linking, review and evaluation of research results, based on the open access to scientific information.
• To empower a novel eco-system for open access to scientific information, which will provide a range of added-value services for all stakeholders.
OpenScienceLink OpenScienceLink General Intro, July 2013
OpenScienceLink Pilot Services
#1 - Data journals development based on semantically-enabled research dynamics detection#2 - Novel open, semantically-assisted peer review process #3 - Research Trends Detection and Analysis#4: Dynamic researchers’ collaboration based on non-declared, semantically-inferred relationships#5: Scientific field-aware, Productivity- and Impact-oriented Enhanced Research Evaluation Services
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OpenScienceLink OpenScienceLink General Intro, July 2013
OpenScienceLink Platform
Social Media ServicesSemantic Data Mining and Reasoning
Services
OpenScienceLink Added-value Services
Ontology-based Data mining
Crowd-sourcing Mechanism
Influencer Tracking
Topic-based Community Identification
Social Media Information Aggregation
Event Detection
Community Lifecycle
Monitoring
Data Mining for Biomedical and Clinical Research Trends
Detection and Analysis
Social Media Data
Social Media
Social Media Data Feeds
Sentiment Analysis
Text Annotation
Semantic Filtering
Term Co-occurrence
Index Building
Results Ranking
Novel open, semantically-assisted peer review process
Research Dynamics-aware Open Access Data Journals
DevelopmentUniProt,
GO,
MeSH,
CDM,
DMAP,
PONTE Eligibility Criteria,
PONTE Global EHR,
PONTE Drug,
PONTE Disease,
PONTE Target
SocIoS Data Model
Models/Ontologies Recommendation
Content Ranking
Linked Data (DrugBank, Diseasome,LinkedCT, SIDER,…)IUCLID DS
PROMISCUOUS DATABASE
Registry of Open Access Repositories
Open Access Data Infrastructure
Scientific field-aware, Productivity- and Impact-oriented Enhanced Research Evaluation System
Data Mining for Proactive Formulation of Scientific Collaborations
Knowledge-based Concept
Correlation
Concept Correlation
Ranking
Policy Evaluation
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OpenScienceLink OpenScienceLink General Intro, July 2013 11
GoPubMed Platform
A semantic search engine for the life sciences
Data mining, semantic filtering and ranking mechanisms
Instant ontology-based viewing of the retrieved results
Document annotation with ontology concepts
OpenScienceLink OpenScienceLink General Intro, July 2013 12
PONTE Platform
• Provision of a set of tools, mechanisms, models and services which facilitate the researchers’ work towards formulating their test of hypothesis, designing clinical trial protocols and selecting subjects for potential recruitment to clinical trials:
Intelligent semantic inference mechanisms Knowledge-based correlation services Models of clinical trial protocol, drug, disease,
target, patient health data, eligibility criteria, …
OpenScienceLink OpenScienceLink General Intro, July 2013 13
SocIoS Platform
• Social media aggregation through a powerful object model
• Social analytics services• Cross-platform
application development and deployment
• Open source components
OpenScienceLink OpenScienceLink General Intro, July 2013 14
+Spaces Platform (positive spaces)
• Citizen engagement through applications that leverage on social media platforms like Twitter and Facebook but also 3D virtual worlds
• Typical and innovative engagement mechanisms (polls, debates, Role playing simulation)
• Cross-platform application deployment
• Open source components
OpenScienceLink OpenScienceLink General Intro, July 2013
OpenScienceLink Impact (1/3)
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Stakeholder Expected Impact
Researchers
•Wider access to scientific information, and research data sets•Boosting of academic excellence and allowing for equal opportunities•Empower collaborative and/or cross disciplinary research;•Faster and more reliable review of research work•Acceleration in advancement of research•Build research on others’ work with an increased degree of confidence• Influence researchers into moving into new promising research areas•Research data sharing will allow for reduction of the research effort replication
Reviewers•Efficient access to related research work and data•Less time-consuming process•Stronger confidence for the review outcome
Gov. Funding Agencies / Research Funding
Authorities
•Efficient and effective allocation of governmental and private funds to research•Prioritisation of research efforts towards topics with high success potential•Speeding up of research agenda
OpenScienceLink OpenScienceLink General Intro, July 2013
OpenScienceLink Impact (2/3)
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Stakeholder Expected Impact
Publishers
•Building and maintenance of a reviewers’ pool with high relevance to the journal’s field;
• Increased quality and reliability of the review outcome; limiting bias, incompleteness and delays; increased level of confidence for the quality of the research work
•Higher quality journals’ content through an improved review process•Development of data journals with high expected impact; data sharing as publication
• Improved publisher’s reputation within the research community•Faster, more reliable decisions on developing/altering/ending journals based on the identified research dynamics
Citizens and the Society (as a whole)
•Faster access to novel R&D research•Development of novel products and services that generate growth and job positions, thereby addressing key societal challenges;
•Especially concerning the expected boosting of the biomedical and clinical research domain:
Reduced healthcare costs of tomorrow and more affordable medication;Healthier citizensImproving Quality of Life
OpenScienceLink OpenScienceLink General Intro, July 2013
OpenScienceLink Impact (3/3)
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Stakeholder Expected Impact
Enterprises relying on R&D for
their products
and services (e.g.,
pharma companies)
•More accurate and of higher success potential identification of research areas for funding and resource allocation
• Improved, scientifically-sound prioritisation of research efforts•Efficient reaching to high-quality researchers within a specific research field (which is of the company’s interest) for collaboration and thus establishment of stronger bonds between industry and researchers
•Access to and use of more reliable metrics representing the research value (in terms of quality, efficiency, relevance and viability) of published research work, researchers and institutions
•Earlier and more reliable decisions resulting in reduced costs and reduction of opportunity costs
• Improved resource management through early identification of failure and repositioning of resources to other research areas of great interest and with high impact
•Reduced reluctance of companies to invest in research
OpenScienceLink OpenScienceLink General Intro, July 2013 18
Service-oriented Architecture (SOA)
OpenScienceLink OpenScienceLink General Intro, July 2013
• XML based protocols (SOAP or REST)• Related Web Services
– SOAP 1.2– Web Services Addressing– Web Services Notification– WSDL-S– Web Services Metadata Exchange– Web Services Resource Framework
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Technical Interoperability
OpenScienceLink OpenScienceLink General Intro, July 2013
• Open Archives Initiative Protocol for Metadata Harvesting (OAI-PMH)
• OAI-PMH will be employed by data providers wishing to make their data available to the harvesters of the OpenScienceLink platform
• This protocol will be also used in order to publish metadata and enable search over its repositories
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Data Interoperability
OpenScienceLink OpenScienceLink General Intro, July 2013
• W3C RDF/OWL ontologies• Linked Data approach• UMLS mappings between domain ontologies
(GO, MeSH, UniProt)• Shared models
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Semantic Interoperability
OpenScienceLink OpenScienceLink General Intro, July 2013 22
Thank you very much!
►Want to get involved? Visit us at:
http://projects.biotec.tu-dresden.de/opensciencelink/