AIMC Topic: Semantics
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Ontology-based semantic mapping of chemical toxicities.
Toxicology
Nov 20, 2018
This study was undertaken to evaluate the use of ontology-based semantic mapping (OS-Mapping) in chemical toxicity assessment. Nineteen chemical-species phenotypic profiles (CSPPs) were constructed by ontologically annotating the toxicity responses r...
CIBS: A biomedical text summarizer using topic-based sentence clustering.
Journal of biomedical informatics
Nov 13, 2018
Automatic text summarizers can reduce the time required to read lengthy text documents by extracting the most important parts. Multi-document summarizers should produce a summary that covers the main topics of multiple related input texts to diminish...
SIFR annotator: ontology-based semantic annotation of French biomedical text and clinical notes.
BMC bioinformatics
Nov 6, 2018
BACKGROUND: Despite a wide adoption of English in science, a significant amount of biomedical data are produced in other languages, such as French. Yet a majority of natural language processing or semantic tools as well as domain terminologies or ont...
ProvCaRe: Characterizing scientific reproducibility of biomedical research studies using semantic provenance metadata.
International journal of medical informatics
Nov 3, 2018
OBJECTIVE: Reproducibility of research studies is key to advancing biomedical science by building on sound results and reducing inconsistencies between published results and study data. We propose that the available data from research studies combine...
Word and Sentence Embedding Tools to Measure Semantic Similarity of Gene Ontology Terms by Their Definitions.
Journal of computational biology : a journal of computational molecular cell biology
Oct 31, 2018
The gene ontology (GO) database contains GO terms that describe biological functions of genes. Previous methods for comparing GO terms have relied on the fact that GO terms are organized into a tree structure. Under this paradigm, the locations of tw...
Sense classification of shallow discourse relations with focused RNNs.
PloS one
Oct 30, 2018
Understanding the sense of discourse relations between segments of text is essential to truly comprehend any natural language text. Several automated approaches have been suggested, but all rely on external resources, linguistic feature engineering, ...
Using clinical Natural Language Processing for health outcomes research: Overview and actionable suggestions for future advances.
Journal of biomedical informatics
Oct 24, 2018
The importance of incorporating Natural Language Processing (NLP) methods in clinical informatics research has been increasingly recognized over the past years, and has led to transformative advances. Typically, clinical NLP systems are developed and...
Novel knowledge-based system with relation detection and textual evidence for question answering research.
PloS one
Oct 3, 2018
With the development of large-scale knowledge bases (KBs), knowledge-based question answering (KBQA) has become an important research topic in recent years. The key task in KBQA is relation detection, which is the process of finding a compatible answ...
DGCNN: A convolutional neural network over large-scale labeled graphs.
Neural networks : the official journal of the International Neural Network Society
Sep 21, 2018
Exploiting graph-structured data has many real applications in domains including natural language semantics, programming language processing, and malware analysis. A variety of methods has been developed to deal with such data. However, learning grap...
Factorization machines and deep views-based co-training for improving answer quality prediction in online health expert question-answering services.
Journal of biomedical informatics
Sep 18, 2018
In online health expert question-answering (HQA) services, it is significant to automatically determine the quality of the answers. There are two prominent challenges in this task. First, the answers are usually written in short text, which makes it ...
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