Measuring the level of activity in community built bio-ontologies

Journal of Biomedical Informatics
James Malone, Robert Stevens

Abstract

In this paper we explore the measurement of activity in ontology projects as an aspect of community ontology building. When choosing whether to use an ontology or whether to participate in its development, having some knowledge of how actively that ontology is developed is an important issue. Our knowledge of biology grows and changes and an ontology must adapt to keep pace with those changes and also adapt with respect to other ontologies and organisational principles. In essence, we need to know if there is an 'active' community involved with a project or whether a given ontology is inactive or moribund. We explore the use of additions, deletions and changes to ontology files, the regularity and frequency of releases, and the number of ontology repository updates to an ontology as the basis for measuring activity in an ontology. We present our results of this study, which show a dramatic range of activity across some of the more prominent community ontologies, illustrating very active and mature efforts through to those which appear to have become dormant for a number of possible reasons. We show that global activity within the community has remained at a similar level over the last 2 years. Measuring additions, deletions and...Continue Reading

References

Apr 29, 2009·BMC Bioinformatics·Daniel SchoberSusanna-Assunta Sansone
Jun 2, 2009·Nucleic Acids Research·Natalya F NoyMark A Musen
Jun 10, 2010·Bioinformatics·Matthew E HolfordMark Gerstein
Jul 22, 2010·Journal of Biomedical Informatics·Kaihong LiuRebecca S Crowley
Apr 1, 2011·International Journal of Medical Informatics·Dennis LeeFrancis Lau
Nov 26, 2011·BMC Bioinformatics·Martin BoekerStefan Schulz

❮ Previous
Next ❯

Citations

Oct 23, 2013·PloS One·Olivier DameronNolwenn Le Meur
Aug 30, 2016·Language Resources and Evaluation·Aleksandar SavkovJackie Cassell
Dec 10, 2014·Artificial Intelligence in Medicine·Manuel Quesada-MartínezRobert Stevens
Jun 9, 2015·Journal on Data Semantics·Hao WangMark A Musen
Jun 3, 2015·Journal of Biomedical Semantics·Victor ChristenAnika Groß
May 15, 2013·Journal of Biomedical Informatics·Kate ButtonIrena Spasić
Dec 12, 2012·Journal of Biomedical Informatics·Tudor GrozaMichel Dumontier
Feb 13, 2016·PLoS Computational Biology·James MaloneCath Brooksbank
Feb 8, 2018·Journal of Biomedical Semantics·Shaker El-SappaghKyung-Sup Kwak

❮ Previous
Next ❯

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.