the missing link-the evolving current state of linked data for serials-lauruhn

Linked Data at Elsevier

Michael P Lauruhn

The Missing Link: The Evolving Current State of Linked Data for Serials

NASIG 28th Annual Conference

June 7, 2013

@MikeLauruhn

@ElsevierLabs

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• Create greater online engagement with our content and platform

• Create additional usage in journals and books, through interactive use and downloads

• Semantically enrich content and increase value of discovery services compared to the similar content at other platforms

• As a publisher, add value and improve our status as a partner in research

The challenge for publishers

Copyright © 2013 Elsevier, Inc. | All Rights Reserved

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Our Approach

• Expose asset and subject metadata as linked data in Web pages to help discovery

• Use linked data principles while using our current content production workflow

• Use of standard vocabularies, taxonomies, ontologies and entity lists whenever possible

• Leverage partners for content enhancement and knowledge organization


Smart Content: Semantic Enhancements for Scientific Publishing

Concepts:

Metadata,

Entities,

Relationships

Applied Smart Content

• Faceted search & browse

• Ontology-driven navigation

• Task-specific results

• Personalized/localized results

• Question answering

• Topic pages

• Social network maps

• Geolocation maps

• Data mashups

• Text mining reports

Multimedia

Text

Data

Elsevier

content

Related

Elsevier

content

and data

Linked data from

partners and the

Web

• Tag clouds

• Heatmaps

• Streamgraphs

• Scatterplots

• Time series

• Animations

Better discovery

Better understanding

Actionable, persuasive knowledge


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What metadata can we collect & link

Asset Metadata

Bibliographic Metadata

Entities

Relations

Citations


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Entities Example: EMMeT

Core Semantic Types:

Diseases

Anatomy

Clinical Findings (includes symptoms)

Procedures

Drugs

Sources:

EMMeT

SNOMED CT

FMA (Foundational Model of Anatomy)

GO (Gene Ontology)

MeSH

NCIt (National Cancer Institute thesaurus)

Elsevier Merged Medical Taxonomy

Entities


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<skosxl:literalForm xml:lang="en-US">Diabetes Mellitus</skosxl:literalForm> <ebs:usageFlag rdf:resource="http://data.elsevier.com/EMMeT/Flags/MedicalName"/> ... <skosxl:literalForm xml:lang="en-US">Diabetes</skosxl:literalForm> <ebs:usageFlag rdf:resource="http://data.elsevier.com/EMMeT/Flags/ConsumerFriendlyName"/> ... <skos:notation rdf:datatype="http://data.elsevier.com/vocabulary/EMMeT">177824</skos:notation> <skos:notation rdf:datatype="http://dbpedia.org/resource/UMLS">C0011849</skos:notation> ... <rdf:type rdf:resource="http://data.elsevier.com/EMMeT/SemTypes/DiseaseOrSyndrome" /> <skos:broader rdf:ID="Relation-34359" rdf:resource="http://data.elsevier.com/vocabulary/EMMeT/Concept/48543"/> ... <skos:narrower rdf:ID="Relation-9812" rdf:resource="http://data.elsevier.com/vocabulary/EMMeT/34565"/> ... <emsem:hasSymptom rdf:ID="Relation-99999"

rdf:resource="http://data.elsevier.com/vocabulary/EMMeT/Concept/53425"/>

… Abnormal Sense of Taste

Abnormal metabolic state in diabetes mellitus

Disorders of endocrine system

EMMeT – Elsevier Merged Medical Taxonomy

Term example: Diabetes Mellitus

Relations

Entities


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Rivastigmine, a cholinesterase inhibitor, has been used to

treat delirium in elderly patients with stroke. 1 A

biologically plausible premise—that impaired cholinergic

transmission might either cause or worsen delirium—led

to a randomised, placebo-controlled, double-blind trial by

Maarten van Eijk and colleagues 2 in The Lancet in which

they added rivastigmine or placebo to usual treatment of

patients in intensive care. The trial was halted at 104

patients by the drug safety and monitoring board (DSMB)

because of increased mortality (12/54 in the rivastigmine

group, 4/50 in the placebo group; p=0·07) and a worse

outcome. The rivastigmine group …

Linked Data Repository (LDR): Warehouse for Smart Content Enhancements

Delirium treatment: An unmet challenge Title

Drug Clinical finding

• Enhances extracted knowledge of Elsevier

assets by interlinking data with related sources

of medical and scientific content and data.

• Optimized for high-volume read-write for use

by end-user products.

• Provide service layer APIs for ease of

integration.

Disease

ATC: N06DA03 Drug: Rivastigmine

med:diseases Delirium med:drugs Rivastigmine

Elsevier

Trial: NCT00623103 Intervention: Rivastigmine Condition: Delirium

LinkedCT Trial: NCT00623103 Serious Adverse events: Atrial fibrillation

owl:same as

owl: same as

foaf:page


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Some Examples


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Linked Data Prototype for The Lancet

Special featureThe Lancet special issue: ―Stillbirths‖

(Vol 377; Number 9774; April 14, 2011)

Creation LDR-enabled interactive application

using:

• The Lancet content

• Datasets from The Lancet editorial staff

• Datasets from World Bank

• EMMeT subject tagging

• Geo locations & Map

The Lancet and World Bank datasets

loaded into the LDR as triples.

EMMeT tagging results of articles

loaded into LDR.


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Trend Analysis Of Special Health Topics: Stillbirths

http://ldr.elsevier.com/lancet

Countries color coded

by Lancet data on

stillbirth rate per 1000

births.

Bubbles represent

selected data from

World Bank

(GDP per Capita)

Narrow search by

identifying articles with

most relevant concepts

related to stillbirth.


http://ldr.elsevier.com/ukgov/map.html

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Regions color coded

based on avg. cost of

Tamoxifen treatment

per 1000 people.

Bubbles represent

the cost of treating

side effects of Tamoxifen.

Example; North

Yorkshire

Additional cost for

Toremifene = £357k

If we assume an

adverse effect costs

£300 per patient.

Tamoxifen = £1.48m

Toremifene =

£103k

Savings Potential

>£1m by prescribing

a seemingly more

expensive drug

Healthcare Analytics: Breast Cancer Treatment in the UK

Data from

data.gov.uk,

Elsevier articles,

& Elsevier

Pharmapendium



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Neuroscience Research: Improved Access To Data and Better Tools

CHALLENGE Neuroscience is a highly interdisciplinary field requiring analysis on vast amounts of content from many different sources:

• Foundational information is hard to find • Need to identify articles with specific methods or related experiments • Analyze anatomy, connectivity, and gene expression data from different sources • Sources use different ontologies

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Unpaired midbrain region situated in the ventromedial portion of the reticular formation. The VTA is medial to the substantia nigra and ventral to the red nucleus, and extends caudally ….. Anatomy Connectivity Expression


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• Increasing acquisition of data and text analytics capabilities

• Shifting dependence from partners to in-house resources for metadata creation and data modeling

• Innovation in new knowledge organization systems – taxonomy for discovery

– ontology for understanding and integration

• Emergence of shared infrastructure based on linked data principles

Trends within Elsevier today


Thank you

Michael Lauruhn

[email protected]

@MikeLauruhn

@ElsevierLabs


mailto:[email protected]

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