Preprint Article Version 1 Preserved in Portico This version is not peer-reviewed

UniBioDicts: Unified access to Biological Dictionaries

Version 1 : Received: 23 July 2020 / Approved: 24 July 2020 / Online: 24 July 2020 (13:48:50 CEST)

How to cite: Zobolas, J.; Touré, V.; Kuiper, M.; Vercruysse, S. UniBioDicts: Unified access to Biological Dictionaries. Preprints 2020, 2020070586 (doi: 10.20944/preprints202007.0586.v1). Zobolas, J.; Touré, V.; Kuiper, M.; Vercruysse, S. UniBioDicts: Unified access to Biological Dictionaries. Preprints 2020, 2020070586 (doi: 10.20944/preprints202007.0586.v1).

Abstract

We present a set of software packages that provide uniform access to diverse biological vocabulary resources that are instrumental for current biocuration efforts and tools. The Unified Biological Dictionaries (UniBioDicts or UBDs) provide a single query-interface for accessing the online API services of leading biological data providers. Given a search string, UBDs return a list of matching term, identifier and metadata units from databases (e.g. UniProt), controlled vocabularies (e.g. PSI-MI), and ontologies (e.g. GO, via BioPortal). This can be coupled to for instance the ‘vsm-autocomplete’ module: an input field (user-interface component) that offers autocomplete lookup for these dictionaries. UBDs create a unified gateway for accessing life science concepts, helping curators find annotation terms across resources (based on descriptive metadata and unambiguous identifiers), and data users search and retrieve the right query terms.

Supplementary and Associated Material

https://github.com/UniBioDicts: UniBioDicts GitHub-organization
https://vsmjs.github.io: Vsmjs project page

Subject Areas

biocuration; dictionaries; ontologies; vocabularies; VSM

Comments (0)

We encourage comments and feedback from a broad range of readers. See criteria for comments and our diversity statement.

Leave a public comment
Send a private comment to the author(s)
Views 0
Downloads 0
Comments 0
Metrics 0


×
Alerts
Notify me about updates to this article or when a peer-reviewed version is published.
We use cookies on our website to ensure you get the best experience.
Read more about our cookies here.