AIMC Topic: Natural Language Processing

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PDF text classification to leverage information extraction from publication reports.

Journal of biomedical informatics
OBJECTIVES: Data extraction from original study reports is a time-consuming, error-prone process in systematic review development. Information extraction (IE) systems have the potential to assist humans in the extraction task, however majority of IE ...

Utilizing uncoded consultation notes from electronic medical records for predictive modeling of colorectal cancer.

Artificial intelligence in medicine
OBJECTIVE: Machine learning techniques can be used to extract predictive models for diseases from electronic medical records (EMRs). However, the nature of EMRs makes it difficult to apply off-the-shelf machine learning techniques while still exploit...

An automated knowledge-based textual summarization system for longitudinal, multivariate clinical data.

Journal of biomedical informatics
OBJECTIVES: Design and implement an intelligent free-text summarization system: The system's input includes large numbers of longitudinal, multivariate, numeric and symbolic clinical raw data, collected over varying periods of time, and in different ...

PheKB: a catalog and workflow for creating electronic phenotype algorithms for transportability.

Journal of the American Medical Informatics Association : JAMIA
OBJECTIVE: Health care generated data have become an important source for clinical and genomic research. Often, investigators create and iteratively refine phenotype algorithms to achieve high positive predictive values (PPVs) or sensitivity, thereby...

Optimizing annotation resources for natural language de-identification via a game theoretic framework.

Journal of biomedical informatics
OBJECTIVE: Electronic medical records (EMRs) are increasingly repurposed for activities beyond clinical care, such as to support translational research and public policy analysis. To mitigate privacy risks, healthcare organizations (HCOs) aim to remo...

Extracting genetic alteration information for personalized cancer therapy from ClinicalTrials.gov.

Journal of the American Medical Informatics Association : JAMIA
OBJECTIVE: Clinical trials investigating drugs that target specific genetic alterations in tumors are important for promoting personalized cancer therapy. The goal of this project is to create a knowledge base of cancer treatment trials with annotati...

An IR-Based Approach Utilizing Query Expansion for Plagiarism Detection in MEDLINE.

IEEE/ACM transactions on computational biology and bioinformatics
The identification of duplicated and plagiarized passages of text has become an increasingly active area of research. In this paper, we investigate methods for plagiarism detection that aim to identify potential sources of plagiarism from MEDLINE, pa...

Application of an automated natural language processing (NLP) workflow to enable federated search of external biomedical content in drug discovery and development.

Drug discovery today
External content sources such as MEDLINE(®), National Institutes of Health (NIH) grants and conference websites provide access to the latest breaking biomedical information, which can inform pharmaceutical and biotechnology company pipeline decisions...

Bio-SCoRes: A Smorgasbord Architecture for Coreference Resolution in Biomedical Text.

PloS one
Coreference resolution is one of the fundamental and challenging tasks in natural language processing. Resolving coreference successfully can have a significant positive effect on downstream natural language processing tasks, such as information extr...