AIMC Topic: Data Mining

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Annotating gene sets by mining large literature collections with protein networks.

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing Jan 1, 2018
Analysis of patient genomes and transcriptomes routinely recognizes new gene sets associated with human disease. Here we present an integrative natural language processing system which infers common functions for a gene set through automatic mining o...
Humans Data Mining Molecular Sequence Annotation Gene Ontology Gene Regulatory Networks Computational Biology Natural Language Processing Algorithms Neoplasms Protein Interaction Maps
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Improving precision in concept normalization.

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing Jan 1, 2018
Most natural language processing applications exhibit a trade-off between precision and recall. In some use cases for natural language processing, there are reasons to prefer to tilt that trade-off toward high precision. Relying on the Zipfian distri...
Data Mining Biological Ontologies False Positive Reactions Computational Biology Natural Language Processing PubMed Electronic Health Records Humans Reproducibility of Results Precision Medicine
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Mining e-cigarette adverse events in social media using Bi-LSTM recurrent neural network with word embedding representation.

Journal of the American Medical Informatics Association : JAMIA Jan 1, 2018
OBJECTIVE: Recent years have seen increased worldwide popularity of e-cigarette use. However, the risks of e-cigarettes are underexamined. Most e-cigarette adverse event studies have achieved low detection rates due to limited subject sample sizes in...
Data Mining Semantics Vaping Electronic Nicotine Delivery Systems Humans Neural Networks, Computer Social Media
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Using uncertainty to link and rank evidence from biomedical literature for model curation.

Bioinformatics (Oxford, England) Dec 1, 2017
MOTIVATION: In recent years, there has been great progress in the field of automated curation of biomedical networks and models, aided by text mining methods that provide evidence from literature. Such methods must not only extract snippets of text t...
Publications Data Mining Uncertainty Machine Learning
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Redefining the Practice of Peer Review Through Intelligent Automation Part 2: Data-Driven Peer Review Selection and Assignment.

Journal of digital imaging Dec 1, 2017
In conventional radiology peer review practice, a small number of exams (routinely 5% of the total volume) is randomly selected, which may significantly underestimate the true error rate within a given radiology practice. An alternative and preferabl...
Data Mining Automation Peer Review, Health Care Humans Artificial Intelligence Radiology
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DeepPhe: A Natural Language Processing System for Extracting Cancer Phenotypes from Clinical Records.

Cancer research Nov 1, 2017
Precise phenotype information is needed to understand the effects of genetic and epigenetic changes on tumor behavior and responsiveness. Extraction and representation of cancer phenotypes is currently mostly performed manually, making it difficult t...
Medical Informatics Humans Computer Systems Electronic Health Records Phenotype Natural Language Processing Reproducibility of Results Precision Medicine Data Mining Neoplasms
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Machine learning for prediction of 30-day mortality after ST elevation myocardial infraction: An Acute Coronary Syndrome Israeli Survey data mining study.

International journal of cardiology Nov 1, 2017
BACKGROUND: Risk scores for prediction of mortality 30-days following a ST-segment elevation myocardial infarction (STEMI) have been developed using a conventional statistical approach.
Israel Acute Coronary Syndrome Surveys and Questionnaires Hospital Mortality ROC Curve Humans ST Elevation Myocardial Infarction Registries Machine Learning Data Mining Retrospective Studies Male Female Middle Aged Algorithms Risk Assessment Prognosis Risk Factors Aged Survival Rate
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Development of an automated assessment tool for MedWatch reports in the FDA adverse event reporting system.

Journal of the American Medical Informatics Association : JAMIA Sep 1, 2017
OBJECTIVE: As the US Food and Drug Administration (FDA) receives over a million adverse event reports associated with medication use every year, a system is needed to aid FDA safety evaluators in identifying reports most likely to demonstrate causal ...
Drug-Related Side Effects and Adverse Reactions Data Mining United States Food and Drug Administration Machine Learning ROC Curve Models, Theoretical Adverse Drug Reaction Reporting Systems Logistic Models Support Vector Machine United States Natural Language Processing
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Machine Learning, Sentiment Analysis, and Tweets: An Examination of Alzheimer's Disease Stigma on Twitter.

The journals of gerontology. Series B, Psychological sciences and social sciences Sep 1, 2017
OBJECTIVES: Social scientists need practical methods for harnessing large, publicly available datasets that inform the social context of aging. We describe our development of a semi-automated text coding method and use a content analysis of Alzheimer...
Social Stigma Public Opinion Ageism Disability Evaluation Data Mining Algorithms Alzheimer Disease Female Male Humans Aged United States Machine Learning Social Media Aged, 80 and over
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T-GOWler: Discovering Generalized Process Models Within Texts.

Journal of computational biology : a journal of computational molecular cell biology Aug 1, 2017
Contemporary workflow management systems are driven by explicit process models specifying the interdependencies between tasks. Creating these models is a challenging and time-consuming task. Existing approaches to mining concrete workflows into model...
Semantics Humans Gene Ontology Algorithms Phylogeny Computational Biology Workflow Data Mining
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