1 Guy Divita Qing Zeng-Treitler Salt Lake City VA, University of Utah School of Medicine Pragmatic...

1

Guy DivitaQing Zeng-TreitlerSalt Lake City VA,

University of Utah School of Medicine

Pragmatic Interoperability

2

Toy Story• We all agree one-off-solution is not good• Many approaches to Interoperability

3

Internal Interoperability

4

Framework Supporting Interoperability

5

Within System Issues

Many Master Builders who do not share a plan!And plan changes…

6

Within System Issues

Sometimes integration is more work than building from scrtach

7

Pragmatic Interoperability

8

Overview

9

Terminology

10

Messaging Protocol

11

Ontological Alignment

12

Pragmatics

13

Pragmatics (2)

14

Feature Alignment Semantics

15

Feature Alignment Semantics (2)

16

Expressibility

17

Expressibility (2)

18

Expressibility(3)

19

Pragmatics (again)

20

Interoperability Efforts within v3NLP

21

• From survey of existing NLP systems

• Common ontological referent points

• Combines CDA, Penn Treebank labels

• New labels where needed – Document structure (table,

figure, snippet, slot value …

• Rendered into • UIMA Type Descriptors• Protégée Ontology

Common Set of Labels

22

Interoperability Efforts within v3NLP

23

Special Considerations

24

Modeling Negation

25

Asymmetric Interoperability

26

Barriers to Interoperability

27

Solution

Limit the number of moving parts

+

Some planning

Simple protocol

Simple semantics

28

Pragmatic InteroperabilityPrinciples

29

• Programs, projects, ideas, utilities, services and shared resources

• workflow aids, annotation editors, evaluation tools, lexicon generation aids, ontology development tools, dashboards

• Repo’s, wiki’s, website(s)• Evolving standards, guidelines, best practices

NLP Ecosystem Elements

30

• Big goals, grand challenges, many little dance steps

• Engendering developer and user communities• Engendering collaborative environments• Governing body to influence direction• ……

NLP Ecosystem Elements (continued)

31

One-off code for specific

tasks (GSpell)

Open source software

developed on common

framework (HITEx)

Interoperable and user friendly

systems on common

framework (V3NLP)

NLP ecosystem/Marketplace

Clinical NLP Development Trend

32

EMMASophia

cTAKESVoogo

ARC

UFIT

Common Labels

Sublanguage Model

UIMA-GATE converter

WEKA

UIMA

U Compare

MetaMap

RapTAT

Mallot

… Toward a NLP Ecosystem

Dave

33

POS Tagger

Shallow NP Parser

Full Parser

Section Tokenizer

Document Classifier

De-Identification

Semantic Classification

Concept Identification

Annotation ToolsCorpus Annotation

Analysis

Negation

Relationship Identification

Temporal Relations

Local Terminology Development Tool

Co-reference Resolution

Word Sense Disambiguation

Document / Section / Sentence/ Phrase

Information Retrieval indexes

Concept: value Identification

Table Tokenization

Figure/Caption Identification

Document Summarization

Multi-Document Summarization –

Novelty Detection

Anaphora Resolution

Text Normalization (stemming)

Spelling Suggestion

Text Simplification

Theme Detection

Concordance

Term Identification

Template Detection

Text-To-Structured Data

GATE

UIMA

Knowtator

NLP Standards

An Ecosystem that includes