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www.collexis.com
Semantic Applications in Science
Darrell W. Gunter EVP / CMO
May 13, 2010
Our Agenda For Today
• The Challenges of Scientific Research
• The Collexis Technology
• Case Studies
o Professional Networks
o Institutional Networks Johns Hopkins & Asklepios
o Managing the Peer Review Process
• The Future… Oh, that’s right Thane is covering that
next!
The Facts
• 90 – 100 hours to
write an article
• 2 – 3 Peer Review 3 –
6 hrs
Researchers
• Articles 154 vs. 83
• # pages/article 12.4 vs.
7.4
• Total pages 2,216 vs.
820
Journal Growth
23,000 Jnls / 90% electronic /Articles –
800K+
1,2,3
The Author is under great pressure!
Collexis Technology
KnowledgeBaseText Fingerprint
Collexis Fingerprint Engine
Collexis Knowledge Engine 7.0
Tokenizer NormalizerAbbreviation
expansion
DehyphenationLanguage
detection
Coordination
expansion
Part-of-Speech
taggingEntity recognition based on regular expressions
Noun phrase
detection
Concept findingPart-of-speech based disambiguation of
thesaurus concepts
Exclude known
idioms
Fingerprint
aggregation
Collexis Knowledge Engine 7.0
• Modular NLP workbench – processing and analyzing of
text documents
• Retrieval and aggregation engine – serving the
application layer
Collexis – selected references
Bundesministerium für Bildung
und ForschungStanford University
Asklepios Kliniken Johnson & Johnson
Johns Hopkins University University of California, San
Franciscio
Dana Farber Cancer Institute
Harvard University
National Institutes of Health
Mayo Clinic
California Institute for
Quantitative Biosciences (QB3),
The Wellcome Trust DKFZ
Explore instead of Searching!
Creating expert profiles from documents
using semantic technologies
Document fingerprints aggregated to expert profiles!
BiomedExperts – more than
297,000 registered users
• Prepopulated network – based on PubMed
• 1.8 million precalculated experts
• More than 24 million co-author relations between them
• Representing over 3,500 institutions
• From 190 countries
• Growing each day between 500 and 1000 users
• BME data used in other applications
• Co-author based
networks
Geographical
mapping of the
co-author network
Johns Hopkins: The Issue
Connecting Experts• Fall retreat main issue how do they take advantage of
the university’s expertise and build collaboration
• First solution – Repurpose a parking lot to be a coffee
shop for the JH community to grab a cup of Joe and
find new collaborators.
• Outcome – Great coffee, great conversation but
collaboration did not take off.
• The Collexis Solution – Expert Institutional Dashboard
Same Application for the NIH
Asklepios
Facts and Figures
• Asklepios - Europe‘s largest health care
provider– 500.000 patients for inpatient care per year, 95 hospitals,
21.000 beds
– 34.500 employees
– Asklepios owns medical nursing and allied health schools
– Home care programs and residential care programs
• Asklepios International – Pacific Health System – California
– Greece, Athens Medical Center
– University hospital in Shanghai: Joint Venture with
Siemens and Tongji University
Optimize Workflows
(e.g. Avoid interruptions caused
by knowledge search, retrieval,
and application)
Distribute
Expert Knowledge
(across multiple locations,
time zones, medical
conditions)
Guide Workflows
(e.g. Care Plans, Expert-Task
Context Allocation)
Help Asklepios to know
“what Asklepios knows”
Stimulate new
Knowledge Acquisition Usage
Models
Why Knowledge
Management?
• Patient, male, age of 62, needs a knee joint prosthesis
due to Rheumatoid Arthritis
• Where is the best place to get it?
• Criteria which will be taken into account:
– Geographical aspects
– Recommendation of his GP
– Publicly available information - mostly via Internet
• Strongest competitors: university hospitals (within the
region)
Use Case 1 – Expert
profiles
Asklepios Research
Profiles
Expert Profile of Prof.
Grifka
Make Internal Expertise
available!
Provide a single point of
search for all relevant content
from publishers!
Link internal expertise /
experience and external
knowledge sources!
• Patient with lung cancer and reduced renal function
• Decision in chemotherapeutic drug is pending
• Preferred choice: Cisplatin as chemotherapeutic agent
• Open questions: can Cisplatin be used which has
nephrotoxicity as a side effect?
Use Case 4 - External Resources and
Internal Experience Use Case 4 - External
Resources and Internal Experience
Search - Cisplatin shows
the relevant publications
from Springer, Elsevier,
Thieme, OVID and other
publishers
Asklepios Intelligent
Digital Library
Opening an journal article…
…shows immediately similar
publications colleagues
… and the names
and expert profiles
Link External Knowledge and
Internal Expertise
Key Issues in STM Industry
• Publishers / Editors
o Finding the right reviewer
o Expanding their pool of reviewers
• Institutions
o Determining what grants they should go after
o Determining who within their organization is best to apply
• Grant Funding Organizations
o Analyzing the vast amount of grant applications submitted.
o Determining who within the organization is best qualified to review the
grant application (known and unknown)
The Challenge for STM
Publishers• Receive thousands of manuscripts annually
• Timely process to conduct the Peer Review Process
• Timely process to determine who should review it.
• Important for reviewer to free of conflicts of interest
• Ethics of review process are paramount
Key Benefits Reviewer Finder
• Fingerprint of manuscript - Clarity
• Determine the best reviewer
• Free of conflicts
• More efficient and effective process
• Ultimately increases profitability
Some thoughts…..
• Get started with a practical project
• Engage your user community before, during & after
• Seek out the best practices and adopt them
• Develop an application that achieves the following:
o Improves productivity
o Solves a problem
o Enhances the value chain
• Build, partner or buy the technology
www.collexis.com
Thank you for your attention!
Darrell W. Gunter, EVP / Chief Marketing Officer
[email protected], cell +1-973-454-3475