AIMC Topic: Information Storage and Retrieval

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The BioTop Family of Upper Level Ontological Resources for Biomedicine.

Studies in health technology and informatics
BioTop is a domain upper level ontology for the life sciences, based on OWL DL, introduced ten years ago. This paper provides an update of the current state of this resource, with a special focus on BioTop's top level, BioTopLite, which currently con...

HTP-NLP: A New NLP System for High Throughput Phenotyping.

Studies in health technology and informatics
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...

Development and Evaluation of a Case-Based Retrieval Service.

Studies in health technology and informatics
Identifying similar patients might greatly facilitate the treatment of a given patient, enabling to observe the response and outcome to a particular treatment. Case-based retrieval services dealing with natural language processing are of major import...

Linked Data Applications Through Ontology Based Data Access in Clinical Research.

Studies in health technology and informatics
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...

Evaluation of the Terminology Coverage in the French Corpus LiSSa.

Studies in health technology and informatics
Extracting concepts from medical texts is a key to support many advanced applications in medical information retrieval. Entity recognition in French texts is moreover challenged by the availability of many resources originally developed for English t...

Text Mining to Support Gene Ontology Curation and Vice Versa.

Methods in molecular biology (Clifton, N.J.)
In this chapter, we explain how text mining can support the curation of molecular biology databases dealing with protein functions. We also show how curated data can play a disruptive role in the developments of text mining methods. We review a decad...

Digital Pharmacovigilance and Disease Surveillance: Combining Traditional and Big-Data Systems for Better Public Health.

The Journal of infectious diseases
The digital revolution has contributed to very large data sets (ie, big data) relevant for public health. The two major data sources are electronic health records from traditional health systems and patient-generated data. As the two data sources hav...

Multi-view non-negative tensor factorization as relation learning in healthcare data.

Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference
Discovering patterns in co-occurrences data between objects and groups of concepts is a useful task in many domains, such as healthcare data analysis, information retrieval, and recommender systems. These relational representations come from objects'...

Natural Language Processing in Radiology: A Systematic Review.

Radiology
Radiological reporting has generated large quantities of digital content within the electronic health record, which is potentially a valuable source of information for improving clinical care and supporting research. Although radiology reports are st...

Endowing a Content-Based Medical Image Retrieval System with Perceptual Similarity Using Ensemble Strategy.

Journal of digital imaging
Content-based medical image retrieval (CBMIR) is a powerful resource to improve differential computer-aided diagnosis. The major problem with CBMIR applications is the semantic gap, a situation in which the system does not follow the users' sense of ...