Medical Informatics
Knowledge Management and Data Mining in Biomedicine
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Chapter
Overview of Linguistic Information
This chapter provides a brief overview of linguistic information, and its relevance to clinical text processing. The contents of this chapter will be familiar to the readers who had to identify the words that ...
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Chapter
Natural Language Processing for Health-Related Texts
Narrative text is an important component of communication in health care, including patient-specific information in health record reports and notes and general biomedical knowledge papers, textbooks and web re...
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Article
Open AccessA two-site survey of medical center personnel’s willingness to share clinical data for research: implications for reproducible health NLP research
A shareable repository of clinical notes is critical for advancing natural language processing (NLP) research, and therefore a goal of many NLP researchers is to create a shareable repository of clinical notes...
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Article
Open AccessMonitoring prescribing patterns using regression and electronic health records
It is beneficial for health care institutions to monitor physician prescribing patterns to ensure that high-quality and cost-effective care is being provided to patients. However, detecting treatment patterns ...
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Article
Open AccessA Method to Combine Signals from Spontaneous Reporting Systems and Observational Healthcare Data to Detect Adverse Drug Reactions
Observational healthcare data contain information useful for hastening detection of adverse drug reactions (ADRs) that may be missed by using data in spontaneous reporting systems (SRSs) alone. There are only...
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Article
Similarity-based modeling in large-scale prediction of drug-drug interactions
The authors of this protocol describe a similarity-based, large-scale approach to predicting novel drug-drug interactions (DDIs) integrating a reference standard database of known DDIs with drug similarity inf...
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Article
Open AccessMining multi-item drug adverse effect associations in spontaneous reporting systems
Multi-item adverse drug event (ADE) associations are associations relating multiple drugs to possibly multiple adverse events. The current standard in pharmacovigilance is bivariate association analysis, where...
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Article
Open AccessCharacterizing environmental and phenotypic associations using information theory and electronic health records
The availability of up-to-date, executable, evidence-based medical knowledge is essential for many clinical applications, such as pharmacovigilance, but executable knowledge is costly to obtain and update. Aut...
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Article
Open AccessPhenoGO: an integrated resource for the multiscale mining of clinical and biological data
The evolving complexity of genome-scale experiments has increasingly centralized the role of a highly computable, accurate, and comprehensive resource spanning multiple biological scales and viewpoints. To pro...
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Chapter and Conference Paper
Discovering Novel Adverse Drug Events Using Natural Language Processing and Mining of the Electronic Health Record
This talk presents an overview of our research in use of medical knowledge, natural language processing, the electronic health record, and statistical methods to automatically discover novel adverse drug event...
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Article
Open AccessUsing contextual and lexical features to restructure and validate the classification of biomedical concepts
Biomedical ontologies are critical for integration of data from diverse sources and for use by knowledge-based biomedical applications, especially natural language processing as well as associated mining and r...
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Article
Open AccessMachine learning and word sense disambiguation in the biomedical domain: design and evaluation issues
Word sense disambiguation (WSD) is critical in the biomedical domain for improving the precision of natural language processing (NLP), text mining, and information retrieval systems because ambiguous words neg...
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Chapter
Natural Language and Text Processing in Biomedicine
After reading this chapter, you should know the answers to these questions:
Why is natural language processing (NLP) important?
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Book
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Chapter
Semantic Text Parsing for Patient Records
Accessibility to a comprehensive variety of different types of structured patient data is critical to improvement in the health care process, yet most patient information is in the form of narrative text. Sema...
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Chapter
Knowledge Management, Data Mining, and Text Mining in Medical Informatics
In this chapter we provide a broad overview of selected knowledge management, data mining, and text mining techniques and their use in various emerging biomedical applications. It aims to set the context for s...
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Chapter
Two Applications of Statistical Modelling to Natural Language Processing
Each week the Columbia-Presbyterian Medical Center collects several megabytes of English text transcribed from radiologists’ dictation and notes of their interpretations of medical diagnostic x-rays. It is des...
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Chapter
Medical Text Processing: Past Achievements, Future Directions
Natural language plays a central role in medicine. It is by far the most convenient means for health care personnel to convey medical information, particularly in terms of the amount of time required, the ease...
