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Supporting Discovery in Medicine by Association Rule Mining of Bibliographic Databases
[chapter]
2000
Lecture Notes in Computer Science
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The preliminary evaluation showed that our approach for supporting discovery in medicine is promising, but also that some further work is needed, especially on limiting the number of potential discoveries ...
We performed two types of preliminary evaluation of the system: 1) by a medical doctor and 2) by automatic means. ...
As an attempt to deal with these issues we developed an interactive discovery support system based on association rule mining of the Medline bibliographic database. ...
doi:10.1007/3-540-45372-5_49
fatcat:thwkhoszpnas7ge5nomlapgfo4
PubMedMiner: Mining and Visualizing MeSH-based Associations in PubMed
2014
AMIA Annual Symposium Proceedings
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such as association rule mining. ...
Based on a survey of literature mining tools, a tool implemented using Ruby and R - PubMedMiner - was developed in this study for mining and visualizing MeSH-based associations for a set of MEDLINE articles ...
Acknowledgements The work was supported in part by the National Library of Medicine of the National Institutes of Health under award number R01LM011364. ...
pmid:25954472
pmcid:PMC4419975
fatcat:675keviwjjgixbwiq4bti4gd2y
SemMedDB: a PubMed-scale repository of biomedical semantic predications
2012
Bioinformatics
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We propose the repository as a knowledge resource that can assist in hypothesis generation and literature-based discovery in biomedicine as well as in clinical decision-making support. ...
Availability and implementation: The SemMedDB repository is available as a MySQL database for non-commercial use at http://skr3. nlm.nih.gov/SemMedDB. An UMLS Metathesaurus license is required. ...
With the ability to access the full extent of the repository, the users can circumvent the 'searchsummarize-visualize' model of Semantic MEDLINE and apply advanced data mining algorithms directly to support ...
doi:10.1093/bioinformatics/bts591
pmid:23044550
pmcid:PMC3509487
fatcat:zkwx45vttfgllnprk5q2e76me4
Mining hidden connections among biomedical concepts from disjoint biomedical literature sets through semantic-based association rule
2009
International Journal of Intelligent Systems
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Since A and C concepts do not occur together in the same data set , the mining goal is to find novel connection among A and C concepts in the disjoint data sets. ...
The novel connection between Raynaud dise ase and fish oils was uncovered from two disjointed biomedical literature sets by Swanson in 1986. ...
This research work is supported in part from the NSF Career grant (NSF IIS 0448023). NSF CCF 0514679 and The PA Dept of Health Tobacco Settlement Formula Grant (#240205, 240196,). ...
doi:10.1002/int.20396
fatcat:stuwblgb3jabdgs7r3wsfrjeem
Literature-based knowledge discovery: the state of the art
[article]
2012
arXiv
pre-print
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Literature-based knowledge discovery method was introduced by Dr. Swanson in 1986. ...
It has been a part of knowledge discovery and text mining. This paper summarizes the development of recent years about LBD and presents two parts, methodology research and applied research. ...
Acknowledgement This work has been supported by grants from Program for Excellent and Creative Young Talents in Universities of Guangdong Province (LYM10097). ...
arXiv:1203.3611v1
fatcat:yn6t4lgct5hdfihlm3ehoqada4
Discovering Information from an Integrated Graph Database
2016
Workshop on Semantic Web Applications and Tools for Life Sciences
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The subject and object resources are expressed as references to concepts in a biomedical ontology consisting of the Unified Medical Language System (UMLS), UniProt and EntrezGene and for the predicate ...
Relations mined from these heterogeneous sources, namely texts, database records, and ontologies have been mapped to Resource Description Framework (RDF) triples in an integrated database. ...
fields in medicine. ...
dblp:conf/swat4ls/MulligenVVK16
fatcat:zugjodv36jgd5guug755tq7u5i
Mining Novel Knowledge from Biomedical Literature using Statistical Measures and Domain Knowledge
2016
Proceedings of the 7th ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics - BCB '16
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The problem of inferring novel knowledge from implicit facts by logically connecting independent fragments of literature is known as Literature Based Discovery(LBD). ...
In this study, to discover interesting and inherent links latent in large corpora, nine distinct methods, comprising variants of statistical information measures and derived semantic knowledge from domain ...
Associate Rule Mining Associate Rule Mining(ARM) is widely used in data mining applications. ...
doi:10.1145/2975167.2975200
dblp:conf/bcb/JhaJ16
fatcat:ldtlfdods5hn7n4hxonqbc7fsq
Automated Acquisition of Disease-Drug Knowledge from Biomedical and Clinical Documents: An Initial Study
2008
JAMIA Journal of the American Medical Informatics Association
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associations by a medical expert supported their correctness across the diseases. Ⅲ J Am Med ...
A b s t r a c t Objective: Explore the automated acquisition of knowledge in biomedical and clinical documents using text mining and statistical techniques to identify disease-drug associations. ...
The discovery of association rules that reflect the relationships between data items is among the basic data mining tasks. ...
doi:10.1197/jamia.m2401
pmid:17947625
pmcid:PMC2274872
fatcat:72nuslunobhl5hpowthb6hvnzu
A Semantic Approach for Mining Hidden Links from Complementary and Non-interactive Biomedical Literature
[chapter]
2006
Proceedings of the 2006 SIAM International Conference on Data Mining
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in the discovery procedure ...
Compared with previous approaches such as LSI-based and traditional association rule-based methods, our method generates much fewer but more relevant novel hypotheses, and requires much less human intervention ...
Introduction The problem of mining hidden links from complementary and non-interactive biomedical literature was exemplified by Swanson's pioneering work on Raynaud disease/fish-oil discovery in 1986 ...
doi:10.1137/1.9781611972764.18
dblp:conf/sdm/HuZYZ06
fatcat:k3q6svubdfhvlnt7up6ooqfshe
Using literature-based discovery to identify disease candidate genes
2005
International Journal of Medical Informatics
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The goal of this system is to discover new, potentially meaningful relations between a given starting concept of interest and other concepts, by mining the bibliographic database MEDLINE ® . ...
We present BITOLA, an interactive literature-based biomedical discovery support system. ...
Dimitar Hristovski thanks NLM and the ORISE program for support. In addition, we would like to thank Tom Rindflesch and Neil Smalheiser for providing valuable comments and insights. ...
doi:10.1016/j.ijmedinf.2004.04.024
pmid:15694635
fatcat:gaxffooxwnbjxaycy5y74ebjmm
Biomedical ontologies in action: role in knowledge management, data integration and decision support
2008
IMIA Yearbook of Medical Informatics
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To provide typical examples of biomedical ontologies in action, emphasizing the role played by biomedical ontologies in knowledge management, data integration and decision support. ...
); data integration, exchange and semantic interoperability; and decision support and reasoning (data selection and aggregation, decision support, natural language processing applications, knowledge discovery ...
Acknowledgments This research was supported in part by the Intramural Research Program of the National Institutes of Health (NIH), National Library of Medicine (NLM). ...
pmid:18660879
pmcid:PMC2592252
fatcat:axl74koixzbffmfi6m3txvlwqu
Biomedical Ontologies in Action: Role in Knowledge Management, Data Integration and Decision Support
2008
IMIA Yearbook of Medical Informatics
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Objectives To provide typical examples of biomedical ontologies in action, emphasizing the role played by biomedical ontologies in knowledge management, data integration and decision support. ...
); data integration, exchange and semantic interoperability; and decision support and reasoning (data selection and aggregation, decision support, natural language processing applications, knowledge discovery ...
Acknowledgments This research was supported in part by the Intramural Research Program of the National Institutes of Health (NIH), National Library of Medicine (NLM). ...
doi:10.1055/s-0038-1638585
fatcat:r7vz4bruq5fpxa5nhhgcxohd2e
Text analytics for life science using the Unstructured Information Management Architecture
2004
IBM Systems Journal
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Acknowledgments BioTeKS is in large part a systems integration effort that builds on technologies and expertise developed ...
More importantly, text analysis can support knowledge discovery in various domains. ...
The National Library of Medicine supports major ontology development efforts (the UMLS metathesaurus 33,53 ), as do many other research institutions (e.g., the GENIA Project 11 ). ...
doi:10.1147/sj.433.0490
fatcat:altfinouzbdy7mrcqx2kzdzecy
Using SemRep to label semantic relations extracted from clinical text
2012
AMIA Annual Symposium Proceedings
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In this paper we examined the relationship between semantic relatedness among medical concepts found in clinical reports and biomedical literature. ...
from Medline abstracts. ...
Acknowledgements This work was supported in part by the Intramural Research Program of the National Institutes of Health, National Library of Medicine (Grant #R01 LM009623-01). ...
pmid:23304331
pmcid:PMC3540517
fatcat:qvpmkcnaz5dlril2ewokoknlkq
Leveraging concept-based approaches to identify potential phyto-therapies
2013
Journal of Biomedical Informatics
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Focusing on identification of phyto-therapies described in MEDLINE, both MeSH descriptors used for indexing and MetaMap inferred UMLS concepts are considered. ...
like MEDLINE. ...
Acknowledgment This study used resources that were funded in part by DHHS/ NIH/NLM R01LM009725. ...
doi:10.1016/j.jbi.2013.04.008
pmid:23665360
pmcid:PMC3723125
fatcat:gm4bf3yhrjel3ovguwaidqtg44
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