Towards automatic patient eligibility assessment: from free-text criteria to queries

K. Milian; A.C.M. ten Teije

doi:10.1007/978-3-642-38326-7_12

Towards automatic patient eligibility assessment: from free-text criteria to queries

Research output: Chapter in Book / Report / Conference proceeding › Conference contribution › Academic › peer-review

Abstract

The presented work contributes to bridging the representation of clinical trials and patient data. Our ultimate goal is to support the trial recruitment, by automating the process of formalizing eligibility criteria of clinical trials, starting from free text of criteria and leading to a computable representation. This paper discusses the final step in the pipeline i.e. generating queries from the structured representation consisting of detected patterns and semantic entities. The queries allow to evaluate patient eligibility for a given trial. To enable easy incorporation of semantic reasoning using medical ontologies, we built the queries in SPARQL and use the OWL representation of one the standards for patient data storage - openEHR archetypes and NCI ontology. The available public repository of archetypes and the expressivity of SPARQL allow to create template queries for the majority of patterns. © 2013 Springer-Verlag.

Original language	English
Title of host publication	14th Conference on Artificial Intelligence in Medicine (AIME2013)
Editors	N. Peek, M. Morales, M. Peleg
Publisher	Springer
Pages	78-83
ISBN (Print)	9783642383250
DOIs	https://doi.org/10.1007/978-3-642-38326-7_12
Publication status	Published - 2013
Event	14th Conference on Artificial Intelligence in Medicine (AIME2013) - Duration: 29 May 2013 → 1 Jun 2013

Conference

Conference	14th Conference on Artificial Intelligence in Medicine (AIME2013)
Period	29/05/13 → 1/06/13

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@inproceedings{d5c0fdc5d7844aac9a5be1ed8b03bdf6,

title = "Towards automatic patient eligibility assessment: from free-text criteria to queries",

abstract = "The presented work contributes to bridging the representation of clinical trials and patient data. Our ultimate goal is to support the trial recruitment, by automating the process of formalizing eligibility criteria of clinical trials, starting from free text of criteria and leading to a computable representation. This paper discusses the final step in the pipeline i.e. generating queries from the structured representation consisting of detected patterns and semantic entities. The queries allow to evaluate patient eligibility for a given trial. To enable easy incorporation of semantic reasoning using medical ontologies, we built the queries in SPARQL and use the OWL representation of one the standards for patient data storage - openEHR archetypes and NCI ontology. The available public repository of archetypes and the expressivity of SPARQL allow to create template queries for the majority of patterns. {\textcopyright} 2013 Springer-Verlag.",

author = "K. Milian and {ten Teije}, A.C.M.",

year = "2013",

doi = "10.1007/978-3-642-38326-7_12",

language = "English",

isbn = "9783642383250",

pages = "78--83",

editor = "N. Peek and M. Morales and M. Peleg",

booktitle = "14th Conference on Artificial Intelligence in Medicine (AIME2013)",

publisher = "Springer",

note = "14th Conference on Artificial Intelligence in Medicine (AIME2013) ; Conference date: 29-05-2013 Through 01-06-2013",

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TY - GEN

T1 - Towards automatic patient eligibility assessment: from free-text criteria to queries

AU - Milian, K.

AU - ten Teije, A.C.M.

PY - 2013

Y1 - 2013

N2 - The presented work contributes to bridging the representation of clinical trials and patient data. Our ultimate goal is to support the trial recruitment, by automating the process of formalizing eligibility criteria of clinical trials, starting from free text of criteria and leading to a computable representation. This paper discusses the final step in the pipeline i.e. generating queries from the structured representation consisting of detected patterns and semantic entities. The queries allow to evaluate patient eligibility for a given trial. To enable easy incorporation of semantic reasoning using medical ontologies, we built the queries in SPARQL and use the OWL representation of one the standards for patient data storage - openEHR archetypes and NCI ontology. The available public repository of archetypes and the expressivity of SPARQL allow to create template queries for the majority of patterns. © 2013 Springer-Verlag.

AB - The presented work contributes to bridging the representation of clinical trials and patient data. Our ultimate goal is to support the trial recruitment, by automating the process of formalizing eligibility criteria of clinical trials, starting from free text of criteria and leading to a computable representation. This paper discusses the final step in the pipeline i.e. generating queries from the structured representation consisting of detected patterns and semantic entities. The queries allow to evaluate patient eligibility for a given trial. To enable easy incorporation of semantic reasoning using medical ontologies, we built the queries in SPARQL and use the OWL representation of one the standards for patient data storage - openEHR archetypes and NCI ontology. The available public repository of archetypes and the expressivity of SPARQL allow to create template queries for the majority of patterns. © 2013 Springer-Verlag.

U2 - 10.1007/978-3-642-38326-7_12

DO - 10.1007/978-3-642-38326-7_12

M3 - Conference contribution

SN - 9783642383250

SP - 78

EP - 83

BT - 14th Conference on Artificial Intelligence in Medicine (AIME2013)

A2 - Peek, N.

A2 - Morales, M.

A2 - Peleg, M.

PB - Springer

T2 - 14th Conference on Artificial Intelligence in Medicine (AIME2013)

Y2 - 29 May 2013 through 1 June 2013

ER -

Towards automatic patient eligibility assessment: from free-text criteria to queries

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