Towards the Prokaryotic Regulation Ontology: An Ontological Model to Infer Gene Regulation Physiology from Mechanisms in Bacteria

Citlalli Mejía-Almonte, Julio Collado-Vides

2019

Abstract

Here we present a formal ontological model that explicitly represents regulatory interactions among the main objects involved in transcriptional regulation in bacteria. These formal relations allow the inference of gene regulation physiology from gene regulation mechanisms. The automatically instantiated classes can be used to assist in the mechanistic interpretation of gene expression experiments done at the physiological level, such as RNA-seq. This is the first step to develop a more comprehensive ontology focused on prokaryotic gene regulation. The ontology is available at https://github.com/prokaryotic-regulation-ontology

Paper Citation

in Harvard Style

Mejía-Almonte C. and Collado-Vides J. (2019). Towards the Prokaryotic Regulation Ontology: An Ontological Model to Infer Gene Regulation Physiology from Mechanisms in Bacteria. In Proceedings of the 11th International Joint Conference on Knowledge Discovery, Knowledge Engineering and Knowledge Management (IC3K 2019) - Volume 2: KEOD; ISBN 978-989-758-382-7, SciTePress, pages 495-499. DOI: 10.5220/0008387804950499

in Bibtex Style

@conference{keod19,
author={Citlalli Mejía-Almonte and Julio Collado-Vides},
title={Towards the Prokaryotic Regulation Ontology: An Ontological Model to Infer Gene Regulation Physiology from Mechanisms in Bacteria},
booktitle={Proceedings of the 11th International Joint Conference on Knowledge Discovery, Knowledge Engineering and Knowledge Management (IC3K 2019) - Volume 2: KEOD},
year={2019},
pages={495-499},
publisher={SciTePress},
organization={INSTICC},
doi={10.5220/0008387804950499},
isbn={978-989-758-382-7},
}

in EndNote Style

TY - CONF

JO - Proceedings of the 11th International Joint Conference on Knowledge Discovery, Knowledge Engineering and Knowledge Management (IC3K 2019) - Volume 2: KEOD
TI - Towards the Prokaryotic Regulation Ontology: An Ontological Model to Infer Gene Regulation Physiology from Mechanisms in Bacteria
SN - 978-989-758-382-7
AU - Mejía-Almonte C.
AU - Collado-Vides J.
PY - 2019
SP - 495
EP - 499
DO - 10.5220/0008387804950499
PB - SciTePress