Text Mining for Adverse Drug Events: the Promise, Challenges, and State of the Art

Large-scale combining signals from both biomedical literature and the FDA Adverse Event Reporting System (FAERS) to improve post-marketing drug safety signal detection

(2014) Rong Xu et al.   BMC BIOINFORMATICS

Toward Enhanced Pharmacovigilance Using Patient-Generated Data on the Internet

(2014) R W White et al.   CLINICAL PHARMACOLOGY & THERAPEUTICS

An overview of MetaMap: historical perspective and recent advances

(2014) Alan R Aronson et al.   JOURNAL OF THE AMERICAN MEDICAL INFORMATICS ASSOCIATION

Automated Detection of Off-Label Drug Use

(2014) Kenneth Jung et al.   PLoS One

Advancing the Science for Active Surveillance: Rationale and Design for the Observational Medical Outcomes Partnership

(2013) Paul E. Stang et al.   ANNALS OF INTERNAL MEDICINE

Advancing the Science of Pharmacovigilance

(2013) P K Honig   CLINICAL PHARMACOLOGY & THERAPEUTICS

Pharmacovigilance Using Clinical Notes

(2013) P LePendu et al.   CLINICAL PHARMACOLOGY & THERAPEUTICS

Performance of Pharmacovigilance Signal-Detection Algorithms for the FDA Adverse Event Reporting System

(2013) R Harpaz et al.   CLINICAL PHARMACOLOGY & THERAPEUTICS

Defining a Reference Set to Support Methodological Research in Drug Safety

(2013) Patrick B. Ryan et al.   DRUG SAFETY

Natural language processing: State of the art and prospects for significant progress, a workshop sponsored by the National Library of Medicine

(2013) Carol Friedman et al.   JOURNAL OF BIOMEDICAL INFORMATICS

Defining a comprehensive verotype using electronic health records for personalized medicine

(2013) Mary Regina Boland et al.   JOURNAL OF THE AMERICAN MEDICAL INFORMATICS ASSOCIATION

Web-scale pharmacovigilance: listening to signals from the crowd

(2013) Ryen W White et al.   JOURNAL OF THE AMERICAN MEDICAL INFORMATICS ASSOCIATION

Extracting drug indication information from structured product labels using natural language processing

(2013) Kin Wah Fung et al.   JOURNAL OF THE AMERICAN MEDICAL INFORMATICS ASSOCIATION

A method for controlling complex confounding effects in the detection of adverse drug reactions using electronic health records

(2013) Ying Li et al.   JOURNAL OF THE AMERICAN MEDICAL INFORMATICS ASSOCIATION

Mining clinical text for signals of adverse drug-drug interactions

(2013) Srinivasan V Iyer et al.   JOURNAL OF THE AMERICAN MEDICAL INFORMATICS ASSOCIATION

Automatic detection of adverse events to predict drug label changes using text and data mining techniques

(2013) Harsha Gurulingappa et al.   PHARMACOEPIDEMIOLOGY AND DRUG SAFETY

Lessons Learned from Developing a Drug Evidence Base to Support Pharmacovigilance

(2013) J.C. Denny et al.   Applied Clinical Informatics

Novel Data-Mining Methodologies for Adverse Drug Event Discovery and Analysis

(2012) R Harpaz et al.   CLINICAL PHARMACOLOGY & THERAPEUTICS

Detection of Pharmacovigilance-Related Adverse Events Using Electronic Health Records and Automated Methods

(2012) K Haerian et al.   CLINICAL PHARMACOLOGY & THERAPEUTICS

A Reference Standard for Evaluation of Methods for Drug Safety Signal Detection Using Electronic Healthcare Record Databases

(2012) Preciosa M. Coloma et al.   DRUG SAFETY

Development of a benchmark corpus to support the automatic extraction of drug-related adverse effects from medical case reports

(2012) Harsha Gurulingappa et al.   JOURNAL OF BIOMEDICAL INFORMATICS

Unified Medical Language System term occurrences in clinical notes: a large-scale corpus analysis

(2012) S. T. Wu et al.   JOURNAL OF THE AMERICAN MEDICAL INFORMATICS ASSOCIATION

Design and validation of an automated method to detect known adverse drug reactions in MEDLINE: a contribution from the EU–ADR project

(2012) Paul Avillach et al.   JOURNAL OF THE AMERICAN MEDICAL INFORMATICS ASSOCIATION

Combing signals from spontaneous reports and electronic health records for detection of adverse drug reactions

(2012) Rave Harpaz et al.   JOURNAL OF THE AMERICAN MEDICAL INFORMATICS ASSOCIATION

Consistency in the safety labeling of bioequivalent medications

(2012) Jon Duke et al.   PHARMACOEPIDEMIOLOGY AND DRUG SAFETY

Multivariate Bayesian Logistic Regression for Analysis of Clinical Study Safety Issues

(2012) William DuMouchel   STATISTICAL SCIENCE

Literature Based Drug Interaction Prediction with Clinical Assessment Using Electronic Medical Records: Novel Myopathy Associated Drug Interactions

(2012) Jon D. Duke et al.   PLoS Computational Biology

Detecting Drug Interactions From Adverse-Event Reports: Interaction Between Paroxetine and Pravastatin Increases Blood Glucose Levels

(2011) N P Tatonetti et al.   CLINICAL PHARMACOLOGY & THERAPEUTICS

Social Media and Networks in Pharmacovigilance

(2011) I. Ralph Edwards et al.   DRUG SAFETY

‘Global Trigger Tool’ Shows That Adverse Events In Hospitals May Be Ten Times Greater Than Previously Measured

(2011) David C. Classen et al.   HEALTH AFFAIRS

Identifying potential adverse effects using the web: A new approach to medical hypothesis generation

(2011) Adrian Benton et al.   JOURNAL OF BIOMEDICAL INFORMATICS

Natural language processing: an introduction

(2011) Prakash M Nadkarni et al.   JOURNAL OF THE AMERICAN MEDICAL INFORMATICS ASSOCIATION

Using information mining of the medical literature to improve drug safety

(2011) Kanaka D Shetty et al.   JOURNAL OF THE AMERICAN MEDICAL INFORMATICS ASSOCIATION

Text mining for the Vaccine Adverse Event Reporting System: medical text classification using informative feature selection

(2011) Taxiarchis Botsis et al.   JOURNAL OF THE AMERICAN MEDICAL INFORMATICS ASSOCIATION

2010 i2b2/VA challenge on concepts, assertions, and relations in clinical text

(2011) Özlem Uzuner et al.   JOURNAL OF THE AMERICAN MEDICAL INFORMATICS ASSOCIATION

Integration and publication of heterogeneous text-mined relationships on the Semantic Web

(2011) Adrien Coulet et al.   Journal of Biomedical Semantics

Drug safety surveillance using de-identified EMR and claims data: issues and challenges

(2010) Prakash M Nadkarni   JOURNAL OF THE AMERICAN MEDICAL INFORMATICS ASSOCIATION

A side effect resource to capture phenotypic effects of drugs

(2010) Michael Kuhn et al.   Molecular Systems Biology

Combining electronic healthcare databases in Europe to allow for large-scale drug safety monitoring: the EU-ADR Project

(2010) Preciosa M. Coloma et al.   PHARMACOEPIDEMIOLOGY AND DRUG SAFETY

The subjective experience of taking antipsychotic medication: a content analysis of Internet data

(2009) J. Moncrieff et al.   ACTA PSYCHIATRICA SCANDINAVICA

Patient- and Physician-Oriented Web Sites and Drug Surveillance: Bisphosphonates and Severe Bone, Joint, and Muscle Pain

(2009) Harold J. DeMonaco   ARCHIVES OF INTERNAL MEDICINE

ConText: An algorithm for determining negation, experiencer, and temporal status from clinical reports

(2009) Henk Harkema et al.   JOURNAL OF BIOMEDICAL INFORMATICS

Active Computerized Pharmacovigilance Using Natural Language Processing, Statistics, and Electronic Health Records: A Feasibility Study

(2009) X. Wang et al.   JOURNAL OF THE AMERICAN MEDICAL INFORMATICS ASSOCIATION

The New Sentinel Network — Improving the Evidence of Medical-Product Safety

(2009) Richard Platt et al.   NEW ENGLAND JOURNAL OF MEDICINE

BioPortal: ontologies and integrated data resources at the click of a mouse

(2009) N. F. Noy et al.   NUCLEIC ACIDS RESEARCH

Biomedical Text Mining and Its Applications

(2009) Raul Rodriguez-Esteban   PLoS Computational Biology

Detecting influenza epidemics using search engine query data

(2008) Jeremy Ginsberg et al.   NATURE

Getting Started in Text Mining

(2008) K. Bretonnel Cohen et al.   PLoS Computational Biology