AIMC Topic:
Semantics
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Semantic Technologies and Bio-Ontologies.
Methods in molecular biology (Clifton, N.J.)
Jan 1, 2017
As information available through data repositories constantly grows, the need for automated mechanisms for linking, querying, and sharing data has become a relevant factor both in research and industry. This situation is more evident in research fiel...
Semantic Technologies for Re-Use of Clinical Routine Data.
Studies in health technology and informatics
Jan 1, 2017
Routine patient data in electronic patient records are only partly structured, and an even smaller segment is coded, mainly for administrative purposes. Large parts are only available as free text. Transforming this content into a structured and sema...
A Case Study on Sepsis Using PubMed and Deep Learning for Ontology Learning.
Studies in health technology and informatics
Jan 1, 2017
We investigate the application of distributional semantics models for facilitating unsupervised extraction of biomedical terms from unannotated corpora. Term extraction is used as the first step of an ontology learning process that aims to (semi-)aut...
HL7 FHIR: Ontological Reinterpretation of Medication Resources.
Studies in health technology and informatics
Jan 1, 2017
"A solid ontology-based analysis with a rigorous formal mapping for correctness" is one of the ten reasons why the HL7 standard Fast Healthcare Interoperability Resources (FHIR) is advertised to be better than other standards for EHR interoperability...
HTP-NLP: A New NLP System for High Throughput Phenotyping.
Studies in health technology and informatics
Jan 1, 2017
Secondary use of clinical data for research requires a method to quickly process the data so that researchers can quickly extract cohorts. We present two advances in the High Throughput Phenotyping NLP system which support the aim of truly high throu...
Personalized Guideline-Based Treatment Recommendations Using Natural Language Processing Techniques.
Studies in health technology and informatics
Jan 1, 2017
Clinical guidelines and clinical pathways are accepted and proven instruments for quality assurance and process optimization. Today, electronic representation of clinical guidelines exists as unstructured text, but is not well-integrated with patient...
Medical Text Classification Using Convolutional Neural Networks.
Studies in health technology and informatics
Jan 1, 2017
We present an approach to automatically classify clinical text at a sentence level. We are using deep convolutional neural networks to represent complex features. We train the network on a dataset providing a broad categorization of health informatio...
Linked Data Applications Through Ontology Based Data Access in Clinical Research.
Studies in health technology and informatics
Jan 1, 2017
Clinical care and research data are widely dispersed in isolated systems based on heterogeneous data models. Biomedicine predominantly makes use of connected datasets based on the Semantic Web paradigm. Initiatives like Bio2RDF created Resource Descr...
BELMiner: adapting a rule-based relation extraction system to extract biological expression language statements from bio-medical literature evidence sentences.
Database : the journal of biological databases and curation
Jan 1, 2017
UNLABELLED: Extracting meaningful relationships with semantic significance from biomedical literature is often a challenging task. BioCreative V track4 challenge for the first time has organized a comprehensive shared task to test the robustness of t...
A Gene Ontology Tutorial in Python.
Methods in molecular biology (Clifton, N.J.)
Jan 1, 2017
This chapter is a tutorial on using Gene Ontology resources in the Python programming language. This entails querying the Gene Ontology graph, retrieving Gene Ontology annotations, performing gene enrichment analyses, and computing basic semantic sim...
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