AIMC Topic: Natural Language Processing

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Data mining and pathway analysis of glucose-6-phosphate dehydrogenase with natural language processing.

Molecular medicine reports
Human glucose-6-phosphate dehydrogenase (G6PD) is a crucial enzyme in the pentose phosphate pathway, and serves an important role in biosynthesis and the redox balance. G6PD deficiency is a major cause of neonatal jaundice and acute hemolyticanemia, ...

DrugSemantics: A corpus for Named Entity Recognition in Spanish Summaries of Product Characteristics.

Journal of biomedical informatics
For the healthcare sector, it is critical to exploit the vast amount of textual health-related information. Nevertheless, healthcare providers have difficulties to benefit from such quantity of data during pharmacotherapeutic care. The problem is tha...

A Two-Stage Biomedical Event Trigger Detection Method Integrating Feature Selection and Word Embeddings.

IEEE/ACM transactions on computational biology and bioinformatics
Extracting biomedical events from biomedical literature plays an important role in the field of biomedical text mining, and the trigger detection is a key step in biomedical event extraction. We propose a two-stage method for trigger detection, which...

Predicting mental conditions based on "history of present illness" in psychiatric notes with deep neural networks.

Journal of biomedical informatics
BACKGROUND: Applications of natural language processing to mental health notes are not common given the sensitive nature of the associated narratives. The CEGS N-GRID 2016 Shared Task in Clinical Natural Language Processing (NLP) changed this scenari...

A hybrid approach to automatic de-identification of psychiatric notes.

Journal of biomedical informatics
De-identification, or identifying and removing protected health information (PHI) from clinical data, is a critical step in making clinical data available for clinical applications and research. This paper presents a natural language processing syste...

Text Mining of the Electronic Health Record: An Information Extraction Approach for Automated Identification and Subphenotyping of HFpEF Patients for Clinical Trials.

Journal of cardiovascular translational research
Precision medicine requires clinical trials that are able to efficiently enroll subtypes of patients in whom targeted therapies can be tested. To reduce the large amount of time spent screening, identifying, and recruiting patients with specific subt...

Automated problem list generation and physicians perspective from a pilot study.

International journal of medical informatics
OBJECTIVE: An accurate, comprehensive and up-to-date problem list can help clinicians provide patient-centered care. Unfortunately, problem lists created and maintained in electronic health records by providers tend to be inaccurate, duplicative and ...

De-identification of clinical notes via recurrent neural network and conditional random field.

Journal of biomedical informatics
De-identification, identifying information from data, such as protected health information (PHI) present in clinical data, is a critical step to enable data to be shared or published. The 2016 Centers of Excellence in Genomic Science (CEGS) Neuropsyc...

The effects of natural language processing on cross-institutional portability of influenza case detection for disease surveillance.

Applied clinical informatics
OBJECTIVES: This study evaluates the accuracy and portability of a natural language processing (NLP) tool for extracting clinical findings of influenza from clinical notes across two large healthcare systems. Effectiveness is evaluated on how well NL...