ChEBI in 2016: Improved services and an expanding collection of metabolites
J Hastings, G Owen, A Dekker, M Ennis… - Nucleic acids …, 2016 - academic.oup.com
ChEBI is a database and ontology containing information about chemical entities of
biological interest. It currently includes over 46 000 entries, each of which is classified within …
biological interest. It currently includes over 46 000 entries, each of which is classified within …
Corpus domain effects on distributional semantic modeling of medical terms
SVS Pakhomov, G Finley, R McEwan, Y Wang… - …, 2016 - academic.oup.com
Motivation: Automatically quantifying semantic similarity and relatedness between clinical
terms is an important aspect of text mining from electronic health records, which are …
terms is an important aspect of text mining from electronic health records, which are …
Learning chemistry: exploring the suitability of machine learning for the task of structure-based chemical ontology classification
Chemical data is increasingly openly available in databases such as PubChem, which
contains approximately 110 million compound entries as of February 2021. With the …
contains approximately 110 million compound entries as of February 2021. With the …
[PDF][PDF] Semantic similarity in the gene ontology
C Pesquita - The gene ontology handbook, 2017 - library.oapen.org
Gene Ontology-based semantic similarity (SS) allows the comparison of GO terms or entities
annotated with GO terms, by leveraging on the ontology structure and properties and on …
annotated with GO terms, by leveraging on the ontology structure and properties and on …
Interpretable ontology extension in chemistry
Reference ontologies provide a shared vocabulary and knowledge resource for their
domain. Manual construction and annotation enables them to maintain high quality, allowing …
domain. Manual construction and annotation enables them to maintain high quality, allowing …
GOssTo: a stand-alone application and a web tool for calculating semantic similarities on the Gene Ontology
We present GOssTo, the Gene Ontology semantic similarity Tool, a user-friendly software
system for calculating semantic similarities between gene products according to the Gene …
system for calculating semantic similarities between gene products according to the Gene …
[PDF][PDF] Semantic Similarity Definition.
FM Couto, A Lamurias - 2019 - researchgate.net
In bioinformatics, semantic similarity has been used to compare different types of biomedical
entities, such as proteins, compounds and phenotypes, based on their biological role …
entities, such as proteins, compounds and phenotypes, based on their biological role …
Neuro-symbolic semantic learning for chemistry
Ontologies represent human domain expertise symbolically in a way that is accessible to
human experts and suitable for a variety of applications. As a result, they are widely used in …
human experts and suitable for a variety of applications. As a result, they are widely used in …
Linking reaction mechanisms and quantum chemistry: An ontological approach
In this paper, a linked-data framework for connecting species in chemical kinetic reaction
mechanisms with quantum calculations is presented. A mechanism can be constructed from …
mechanisms with quantum calculations is presented. A mechanism can be constructed from …
Evaluating the effect of annotation size on measures of semantic similarity
Background Ontologies are widely used as metadata in biological and biomedical datasets.
Measures of semantic similarity utilize ontologies to determine how similar two entities …
Measures of semantic similarity utilize ontologies to determine how similar two entities …