AIMC Topic: Semantics
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Cross-lingual semantic annotation of biomedical literature: experiments in Spanish and English.
Bioinformatics (Oxford, England)
Mar 1, 2020
MOTIVATION: Biomedical literature is one of the most relevant sources of information for knowledge mining in the field of Bioinformatics. In spite of English being the most widely addressed language in the field; in recent years, there has been a gro...
Multi-scale structural analysis of proteins by deep semantic segmentation.
Bioinformatics (Oxford, England)
Mar 1, 2020
MOTIVATION: Recent advances in computational methods have facilitated large-scale sampling of protein structures, leading to breakthroughs in protein structural prediction and enabling de novo protein design. Establishing methods to identify candidat...
Graph embedding on biomedical networks: methods, applications and evaluations.
Bioinformatics (Oxford, England)
Feb 15, 2020
MOTIVATION: Graph embedding learning that aims to automatically learn low-dimensional node representations, has drawn increasing attention in recent years. To date, most recent graph embedding methods are evaluated on social and information networks ...
A Collection of Benchmark Data Sets for Knowledge Graph-based Similarity in the Biomedical Domain.
Database : the journal of biological databases and curation
Jan 1, 2020
The ability to compare entities within a knowledge graph is a cornerstone technique for several applications, ranging from the integration of heterogeneous data to machine learning. It is of particular importance in the biomedical domain, where seman...
Gene Ontology Semantic Similarity Analysis Using GOSemSim.
Methods in molecular biology (Clifton, N.J.)
Jan 1, 2020
The GOSemSim package, an R-based tool within the Bioconductor project, offers several methods based on information content and graph structure for measuring semantic similarity among GO terms, gene products and gene clusters. In this chapter, I illus...
The influence of place and time on lexical behavior: A distributional analysis.
Behavior research methods
Dec 1, 2019
We measured and documented the influence of corpus effects on lexical behavior. Specifically, we used a corpus of over 26,000 fiction books to show that computational models of language trained on samples of language (i.e., subcorpora) representative...
Automatic Sleep Stages Classification Combining Semantic Representation and Dynamic Expert System.
Studies in health technology and informatics
Aug 21, 2019
Interest in sleep has been growing in the last decades, considering its benefits for well-being, but also to diagnose sleep troubles. The gold standard to monitor sleep consists of recording the course of many physiological parameters during a whole ...
An Exploratory Study on Pseudo-Data Generation in Prescription and Adverse Drug Reaction Extraction.
Studies in health technology and informatics
Aug 21, 2019
Prescription information and adverse drug reactions (ADR) are two components of detailed medication instructions that can benefit many aspects of clinical research. Automatic extraction of this information from free-text narratives via Information Ex...
Semantic Provenance Graph for Reproducibility of Biomedical Research Studies: Generating and Analyzing Graph Structures from Published Literature.
Studies in health technology and informatics
Aug 21, 2019
OBJECTIVE: To characterize the scientific reproducibility of biomedical research studies by query and analysis of semantic provenance graphs generated from provenance metadata terms extracted from PubMed articles.
IDOMEN: An Extension of Infectious Disease Ontology for MENingitis.
Studies in health technology and informatics
Aug 21, 2019
In sub-Saharan African countries the prevention and control of epidemic diseases requires the improvement of the surveillance system for these diseases. Biomedical ontologies are a growing field that can improve health information systems. Indeed bio...
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