AIMC Topic: Semantics

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BELTracker: evidence sentence retrieval for BEL statements.

Database : the journal of biological databases and curation May 12, 2016
Biological expression language (BEL) is one of the main formal representation models of biological networks. The primary source of information for curating biological networks in BEL representation has been literature. It remains a challenge to ident...
Semantics Data Curation Internet Data Mining Computational Biology Software Natural Language Processing
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BelSmile: a biomedical semantic role labeling approach for extracting biological expression language from text.

Database : the journal of biological databases and curation May 12, 2016
Biological expression language (BEL) is one of the most popular languages to represent the causal and correlative relationships among biological events. Automatically extracting and representing biomedical events using BEL can help biologists quickly...
Data Mining Semantics Databases, Factual Humans Computational Biology Software Natural Language Processing
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OmniSearch: a semantic search system based on the Ontology for MIcroRNA Target (OMIT) for microRNA-target gene interaction data.

Journal of biomedical semantics May 10, 2016
As a special class of non-coding RNAs (ncRNAs), microRNAs (miRNAs) perform important roles in numerous biological and pathological processes. The realization of miRNA functions depends largely on how miRNAs regulate specific target genes. It is there...
Gene Ontology User-Computer Interface MicroRNAs Epistasis, Genetic Computational Biology Semantics
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Publication of nuclear magnetic resonance experimental data with semantic web technology and the application thereof to biomedical research of proteins.

Journal of biomedical semantics May 5, 2016
BACKGROUND: The nuclear magnetic resonance (NMR) spectroscopic data for biological macromolecules archived at the BioMagResBank (BMRB) provide a rich resource of biophysical information at atomic resolution. The NMR data archived in NMR-STAR ASCII fo...
Proteins Semantics Biological Ontologies Databases, Protein Nuclear Magnetic Resonance, Biomolecular Internet
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miRiaD: A Text Mining Tool for Detecting Associations of microRNAs with Diseases.

Journal of biomedical semantics Apr 29, 2016
BACKGROUND: MicroRNAs are increasingly being appreciated as critical players in human diseases, and questions concerning the role of microRNAs arise in many areas of biomedical research. There are several manually curated databases of microRNA-diseas...
Biological Ontologies Disease Data Mining Semantics Natural Language Processing Internet Biomedical Research MicroRNAs
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The Ontology for Biomedical Investigations.

PloS one Apr 29, 2016
The Ontology for Biomedical Investigations (OBI) is an ontology that provides terms with precisely defined meanings to describe all aspects of how investigations in the biological and medical domains are conducted. OBI re-uses ontologies that provide...
Semantics Databases, Factual Biological Ontologies Humans Internet Animals Software Computational Biology Metadata
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Automated identification of molecular effects of drugs (AIMED).

Journal of the American Medical Informatics Association : JAMIA Apr 23, 2016
INTRODUCTION: Genomic profiling information is frequently available to oncologists, enabling targeted cancer therapy. Because clinically relevant information is rapidly emerging in the literature and elsewhere, there is a need for informatics technol...
Information Storage and Retrieval Semantics Antineoplastic Agents Natural Language Processing Unified Medical Language System MEDLINE Clinical Trials as Topic Precision Medicine Neoplasms Humans
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Sortal anaphora resolution to enhance relation extraction from biomedical literature.

BMC bioinformatics Apr 14, 2016
BACKGROUND: Entity coreference is common in biomedical literature and it can affect text understanding systems that rely on accurate identification of named entities, such as relation extraction and automatic summarization. Coreference resolution is ...
Linguistics Databases, Factual Semantics Natural Language Processing Biological Ontologies
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Exploring information from the topology beneath the Gene Ontology terms to improve semantic similarity measures.

Gene Apr 12, 2016
Measuring the similarity between pairs of biological entities is important in molecular biology. The introduction of Gene Ontology (GO) provides us with a promising approach to quantifying the semantic similarity between two genes or gene products. T...
Humans Algorithms Yeasts Databases, Protein Terminology as Topic Gene Expression Profiling Semantics Proteins Gene Ontology
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Support Vector Machine with Ensemble Tree Kernel for Relation Extraction.

Computational intelligence and neuroscience Mar 22, 2016
Relation extraction is one of the important research topics in the field of information extraction research. To solve the problem of semantic variation in traditional semisupervised relation extraction algorithm, this paper proposes a novel semisuper...
Support Vector Machine Information Storage and Retrieval Semantics Humans Algorithms
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