Post on 29-Aug-2014
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Merck’s Information Landscape KnowledgebaseKelly Clark & Charisma Eugenio June 10, 2014
Modeling Merck’s Information Landscape(MRL = Merck Research Laboratories)
Metabolomics
Gene expression
SequencingPharmacogenetics
Imaging
Safety/PV Real world data
Clinical trials
Global EMRs & registries Social networks / patient communities
MonitoringBehavior/ adherence /compliance
Vaccine production
RNAi
HTS
PathwaysBiological lit. / Targets
Chemistry / Chemical lit
Disease
Competitive intelligence
Pharmacology
Epidemiology
Target ClassMechanism of Action
Toxicity
OutcomesEHR
Stage gate decisions
External partners
Indication
Targeted institutionsEngagement programs
Formulary
Market access / channels
Batch records
Labeling
Quality Assurance
Manufacturing & process design
2011 – “Retina Diagram“ - Concept
Information Types/Taxonomies from Merck’s Information Landscape Knowledgebase (ILK)
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Marketing
Regulatory
Clinical
Molecules / Compounds
PharmacologyToxicology
PK/PD
Studies
Gene
Competitive Intelligence
Animals
Biological Specimens
Assays
Real World Evidence
Targets
ProteinExperimentsLaboratory
Programs
Biomarkers
Modeling & Simulation
2014 – “Retina Diagram” - Real
This graphic created using Gephi: Bastian M., Heymann S., Jacomy M. (2009). Gephi: an open source software for exploring and manipulating networks. International AAAI Conference on Weblogs and Social Media.
R&D decisions rely on high quality information to steer programs and the pipeline
Knowledge Artifacts“Target validation plan”
Business Groups“Early Development team”
People“John Smith”
Information Types“Clinical Trial Name”
Organization Units“Analytical Chemistry”
Sources“Electronic Lab Notebook”
Business Processes“Integrative assessment of liver
toxicity” Activities“Refine model”
Roles“Statistician”
Decisions/ Gateways“Determine Patient
Stratification Biomarkers”
R&D Information Landscape>27,000 entities and 70,000 relationships defined
The volume and variety of internal information and external scientific information continues to grow at a rapid and accelerating rate
The ability to readily find, access, and use information is absolutely critical
Capabilities“Biomarker Validation”
FeedbackSurveys, VoC
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Today Next 2-3 Years Beyond
Culture of Single Use
“Find & Access”
Dec
isio
n M
akin
g Q
ualit
y
Vocabulary Management
Embedded Stewardship
Information Flows Modeled
Effective Search
Integrated Information Architecture
IM Challenges Characterized
Fragmented tools,
processes
Systematic categorization
of data
Info
rmat
ion
Man
agem
ent M
atur
ity
As knowledge workers understand and embrace improved information management practices, better decision making can be enabled by better access to information
Organization-Wide Information Re-Use
? Better Information Management Better Decision Making: Better analysis, more transparency and collaboration, better workflow management, faster decisions
Dec
isio
n Q
ualit
yA
dopt
ion,
Mat
urity
Improving R&D Decision Making
Information Flows Modeled
Clinical
Development
Consumer Care
Research
FormulationSafety
Regulatory
Manufacturing
Enterprise Business Analysis and IT Resource planning tends to focus on organizational domains separately
“Every system is perfectly designed to get exactly the results it gets.” --
“Google Street View” for information flows…
Merck
Analysts need a way to collaborate on mapping information flowsfrom different domains without explicit coordination
http://www.dwalls.com/Nature/Nature-World-Travel/Aerial+View+of+Downtown+Boston
Is a method of documenting and modeling the flow of information through an enterprise that allows both targeted and holistic analysis across the information continuum.
Sales & Marketing
MCC
•Regulatory
R&D
ManufacturingMerck
Semantic Information Flow Modeling (sIFM)…
Regulatory
Discovering the Information Flow Modeling Ontology
Mind Map for Merck’s “Patients Like Me” collaboration hand‐drawn by Jyoti ShahUsed with permission from PatientsLikeMe ®
DataSources Organizations Business
ProcessesDecisions
KMArtifacts
Initiatives / Projects
UseCasesPeople Roles
InformationTypes Capabilities Business
GroupsActivities
We determined the types of things (entities) and the types of relationshipsthat we were trying to understand and model them using a common semantic framework
Collaboration without Coordination
The use of an information modeling ontology allows multiple informatics and business analysts to collaborate on the same model without explicit coordination
Analyst 1 Analyst 2 Analyst 3
Compound structure ELN Medicinal Chemist uses ChemCart Pharm Sci uses ELN
Program Biologist uses ELN Compound Structure ChemCart Active Pharmaceutical Ingredient ELN
Toxicologist uses ELN Medicinal Chemist member-of Lead optimization team
Compound Structure ELN
Leveraging the Information Landscape Knowledgebase to enable Information Management and Search
By encoding this knowledge in a searchable semantic knowledgebase, we can discover details about Merck’s information landscape on the fly, that were previously difficult to uncover.
Project InformationTypes
DataSources
KMArtifacts
Translational PK/PD Modeling ?Information
Types
?KMArtifacts
?DataSources
includes
flow
flow
What are the types of information and
data sources associated with
Translational PKPD Modeling?
Semantic Information Flow Modeling –Tools
Role
(from Information Modeling
Framework)
«informatio...Information type
(from Information Modeling
Framework)
«business gr...Team
(from Information Modeling
Framework)
«informatio...Information class
(from Information Modeling
Framework)
BusinessProcess1
(from Information Modeling Framework)
Activity2
Decision
Business Div ision
(from Information Modeling Framework)
«initiative»Initiativ e
(from Information Modeling
Framework)
Internal Data Source
«view»View
(from Information Modeling
Framework)
Document
(from Information Model ing Framework)
«organizati...Organization Unit
(from Information Modeling
Framework)
«business enterp...Enterprise
(from Information Modeling Framework)
«organization...Organization Unit 2
(from Information Model ing Framework)
«organization...Organization Unit 3
(from Information Modeling Framework)
Role 2
(from Information Modeling
Framework)
Role 4
(from Information Modeling
Framework)
External Data Source
Unstructured DocumentRepository
«informatio...information type 2
(from Information Model ing
Framework)
«informatio...information type 3
(from Information Model ing
Framework)
«information c...information class 2
(from Information Modeling Framework)
Person Name 2Person name 3
Person Name
Person Name 4
Person Name 5
«information c...Information class 3
(from Information Model ing Framework)
Specialization of Role
(from Information Modeling
Framework)
Specialization 2 of role
(from Information Model ing
Framework)
Decision 2
«business gr...Committee
(from Information Modeling
Framework)
«business gr...Governance Body
(from Information Modeling
Framework)
«initiative»Initiativ e 2
(from Information Modeling
Framework)
«ini tiative»Initiativ e 3
(from Information Model ing
Framework)
Person name 6
Person Name 7
StartEvent1
EndEvent1
«informatio...Information type 5
(from Information Modeling
Framework)
«informatio...Information type 6
(from Information Modeling
Framework)
Internal Data Source 2Internal Data Source 3
«information c...Information class 4
(from Information Modeling Framework)
«Capability»Capability
(from Information Modeling
Framework)
(from Information Modeling
Framework)
«use case»Use Case
«external or...External
Organization
(from Information Model ing
Framework)
«problem»Pain Point /
Problem
(from Information Modeling
Framework)
Information Modeling
Framework::Database
Table 1
«Field»Database Field 1
(from Information Model ing
Framework)
«Field»Database Field 2
(from Information Modeling
Framework)
Information Modeling
Framework::Database
Table 2
«Field»Database Field 3
(from Information Model ing
Framework)
«dataset»Dataset 1
(from Information Modeling
Framework)
part-of
member-of
participates-in
«flow»«flow»
«flow»
decides
«flow»
includesincludes
«flow»
part-of
enables
enables
part-of
includes-role
part-of
includes-role
includes-role
provides
member-of
member-of
«flow»
«flow»
«flow»
«flow»
«flow»
«flow»
«flow»
has-role
has-role
has-role
part-of
«flow»
performs
decides
decides
part-of
has-role
«stewards»
uses
«flow»
«flow»
«flow»«flow»
«includes» «includes»
«flow»
hasContact
«identified-by»
«owns»
«participates-in»
«provides»
«identi fied-by»
«includes» «includes» «includes»«includes»
«flow»
sIFM starts with the work business analysts do to assess the current state, elicit requirements, pain points, and informatics opportunities
• Stakeholder analysis• Interviews / Req. Elicitation
• Surveys / Diagnostics• Review of existing artifacts
• Brainstorming / Concept mappingInformation‐related entities and concepts are graphically represented using an ontological model with the help of the EA business and information modeling software
Anzo software provides semantic web structuring of the IFM model, and an intuitive interface to allow ad hoc querying, visualization and analytics
Information Landscape Knowledgebase
Information Flow –Knowledge Gathering
Information Flow Modeling
Information Landscape Knowledgebase (ILK)
Information Landscape Knowledgebase –Entity Explorer for Ad Hoc Analysis
Joe Smith
Jane Doe
Information Landscape Knowledgebase –Data Sources
Drill down by faceting on any entity type
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Feedback/Pain Point Analysis
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MRL Search Survey 2013
Example Pain Point Categories:• Access provisioning• Business Process/Workflow
management• Data Quality and Completeness• Data Security• Data Vizualzation/Analysis
Capabilities• Federated Search• Knowledge Management and
organization• Platform / Database• Tags / Keywords• Training / Awareness
Summary – Merck’s Information Landscape Knowledgebase
• Volume and complexity of scientific information is accelerating
• It is critical that scientists can seamlessly find and access that information
• Traditional analysis makes it difficult to understand how information is actually stewarded across the organization, and perpetuates the establishment of siloed solutions
• Semantic Information Flow Modeling and the Information Landscape Knowledgebase allows analysts and architects to collaborate on a common representation of information flow across the organization to enable:– Linked-data approach to analysis – Identification of high impact scientific information management solutions– Stewardship of Merck’s knowledge assets
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Acknowledgements• Merck Research Laboratories – Information Technology
– Karen Conrad– Charisma Eugenio– John Koch– Ellie Norris– Jyoti Shah– Kim Wilson
• Cambridge Semantics Inc.– Ben Szekely– Lee Feigenbaum
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Merck’s Information Landscape KnowledgebaseCharisma EugenioJune 10, 2014
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Information Landscape Knowledgebase (ILK)
Role
(from Information Modeling
Framework)
«informatio...Information type
(from Information Model ing
Framework)
«business gr...Team
(from Information Modeling
Framework)
«informatio...Information class
(from Information Model ing
Framework)
BusinessProcess1
(from Information Modeling Framework)
Activity2
Decision
Business Division
(from Information Modeling Framework)
«initiative»Initiative
(from Information Modeling
Framework)
Internal Data Source
«view»View
(from Information Modeling
Framework)
Document
(from Information Model ing Framework)
«organizati...Organization Unit
(from Information Modeling
Framework)
«business enterp...Enterprise
(from Information Modeling Framework)
«organization...Organization Unit 2
(from Information Modeling Framework)
«organization...Organization Unit 3
(from Information Modeling Framework)
Role 2
(from Information Modeling
Framework)
Role 4
(from Information Model ing
Framework)
External Data Source
Unstructured DocumentRepository
«informatio...information type 2
(from Information Modeling
Framework)
«informatio...information type 3
(from Information Modeling
Framework)
«information c...information class 2
(from Information Model ing Framework)
Person Name 2Person name 3
Person Name
Person Name 4
Person Name 5
«information c...Information class 3
(from Information Modeling Framework)
Specialization of Role
(from Information Modeling
Framework)
Specialization 2 of role
(from Information Modeling
Framework)
Decision 2
«business gr...Committee
(from Information Modeling
Framework)
«business gr...Gov ernance Body
(from Information Model ing
Framework)
«ini tiative»Initiative 2
(from Information Modeling
Framework)
«initiative»Initiativ e 3
(from Information Modeling
Framework)
Person name 6
Person Name 7
StartEvent1
EndEvent1
«informatio...Information type 5
(from Information Modeling
Framework)
«informatio...Information type 6
(from Information Modeling
Framework)
Internal Data Source 2Internal Data Source 3
«information c...Information class 4
(from Information Modeling Framework)
«Capabi lity»Capability
(from Information Modeling
Framework)
(from Information Modeling
Framework)
«use case»Use Case
«external or...External
Organization
(from Information Model ing
Framework)
«problem»Pain Point /
Problem
(from Information Modeling
Framework)
Information Modeling
Framework::Database
Table 1
«Field»Database Field 1
(from Information Modeling
Framework)
«Field»Database Field 2
(from Information Model ing
Framework)
Information Modeling
Framework::Database
Table 2
«Field»Database Field 3
(from Information Model ing
Framework)
«dataset»Dataset 1
(from Information Modeling
Framework)
part-of
member-of
participates-in
«flow»«flow»
«flow»
decides
«flow»
includesincludes
«flow»
part-of
enables
enables
part-of
includes-role
part-of
includes-role
includes-role
provides
member-of
member-of
«flow»
«flow»
«flow»
«flow»
«flow»
«flow»
«flow»
has-role
has-role
has-role
part-of
«flow»
performs
decides
decides
part-of
has-role
«stewards»
uses
«flow»
«flow»
«flow»«flow»
«includes» «includes»
«flow»
hasContact
«identified-by»
«owns»
«participates-in»
«provides»
«identified-by»
«includes» «includes» «includes»«includes»
«flow»
Anzo knowledgebase for Merck’s information landscape, including information-related concepts and entities captured via the Enterprise Semantic Information Flow Modeling (sIFM) initiative
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• Anzo Ontology Editor• Anzo Connect• Anzo for Excel• Anzo on the Web
Anzo Express
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Anzo Ontology Editor
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Anzo Ontology Editor
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Information Flow Model (IFM)
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IFM Oracle Database Schema
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Anzo Connect
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Anzo Connect
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Anzo Connect
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Anzo Connect
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Anzo Connect
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Anzo Connect
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Information Landscape Knowledgebase (ILK)
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Information Landscape Knowledgebase (ILK)
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Information Landscape Knowledgebase (ILK)
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Information Landscape Knowledgebase (ILK)
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Information Landscape Knowledgebase (ILK)
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Information Landscape Knowledgebase (ILK)
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ILK – Entity Explorer
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ILK – Entity Explorer
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ILK – Entity Explorer
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ILK – Entity Explorer
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ILK – Entity Explorer
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ILK – Entity Explorer
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ILK – Entity Explorer
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ILK – Entity Explorer
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ILK – Systems
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ILK – Systems
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ILK – Systems
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ILK – Systems
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ILK – Systems
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ILK – Systems
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ILK – Systems
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ILK – Systems
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ILK – Systems
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ILK – Systems
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ILK – Systems
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ILK – Systems
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ILK – Systems
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ILK – Systems
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ILK – Systems
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Information Landscape Knowledgebase (ILK)