OpenScienceLink General Intro

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Oct 21, 2013 (3 years and 8 months ago)

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OpenScienceLink

OpenScienceLink

General Intro, July 2013

July 2013

OpenScienceLink

General Intro

CIP
-
ICT PSP
-
2012
-
6

ICT 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

2


OpenScienceLink

OpenScienceLink

General Intro, July 2013

OpenScienceLink Consortium

Part.

Participant organisation
name

Short

Name

Country

Expertise

1

Technische

Universität

Dresden

TUD

Germany

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
Research

6

Katholieke Universiteit Leuven

KU 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

3


OpenScienceLink

OpenScienceLink

General Intro, July 2013

OpenScienceLink

Short Introduction to the Project


4


OpenScienceLink

OpenScienceLink

General Intro, July 2013

OpenScienceLink

in Brief

Open

Semantically
-
enabled,

Social
-
aware

Access

to

Scientific

Data

Duration
:

36

months

ICT

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

information

Budget
:

Commission

contribution
:

2
,
099
,
977

euros

Total

budget
:

4
,
199
,
955

euros

Partners
:

8

5


OpenScienceLink

OpenScienceLink

General Intro, July 2013

OpenScienceLink Landscape

Scientific 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

6


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

testing

1

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

1980
s),

52

(
1991
),

31

(
2001
),

20
-
25

(currently)

Drug

Repositioning


7


OpenScienceLink

OpenScienceLink

General Intro, July 2013

OpenScienceLink Overall Objectives

8


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



9


OpenScienceLink

OpenScienceLink

General Intro, July 2013

OpenScienceLink

Platform





























Social Media Services













Semantic 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
Development

UniProt,

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

10


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)

15

Stakeholder

Expected Impact

Researchers


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others’

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with

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increased

degree

of

confidence


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Less

time
-
consuming

process


Stronger

confidence

for

the

review

outcome

Gov. Funding
Agencies /
Research
Funding
Authorities


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OpenScienceLink

OpenScienceLink

General Intro, July 2013

OpenScienceLink

Impact (2/3)

16

Stakeholder

Expected Impact

Publishers


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a

reviewers’

pool

with

high

relevance

to

the

journal’s

field
;


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;

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


I浰mov敤

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)


F慳t敲 慣捥獳st漠湯v敬e刦䐠r敳e慲捨


Development

of
novel products and services that generate growth and job
positions, thereby addressing key societal challenges;


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r敳e慲捨c摯浡d渺


Reduced healthcare costs of tomorrow and more affordable medication;


Healthier citizens


Improving Quality

of Life


OpenScienceLink

OpenScienceLink

General Intro, July 2013

OpenScienceLink

Impact (3/3)

17

Stakeholder

Expected Impact

Enterprises
relying on
R&D for
their
products
and services
(e.g.,
pharma

companies)


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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


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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

19

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

20

Data Interoperability


OpenScienceLink

OpenScienceLink

General Intro, July 2013


W
3
C

RDF/OWL

ontologies


Linked

Data

approach


UMLS

mappings

between

domain

ontologies

(GO,

MeSH,

UniProt)


Shared

models

21

Semantic Interoperability


OpenScienceLink

OpenScienceLink

General Intro, July 2013

Thank you very much!



Want to get involved?


Visit us at:

http
://projects.biotec.tu
-
dresden.de/opensciencelink
/

22