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2016 ; 2016
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English Wikipedia
ICEPO: the ion channel electrophysiology ontology
#MMPMID27055825
Hinard V
; Britan A
; Rougier JS
; Bairoch A
; Abriel H
; Gaudet P
Database (Oxford)
2016[]; 2016
(ä): ä PMID27055825
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Ion channels are transmembrane proteins that selectively allow ions to flow
across the plasma membrane and play key roles in diverse biological processes. A
multitude of diseases, called channelopathies, such as epilepsies, muscle
paralysis, pain syndromes, cardiac arrhythmias or hypoglycemia are due to ion
channel mutations. A wide corpus of literature is available on ion channels,
covering both their functions and their roles in disease. The research community
needs to access this data in a user-friendly, yet systematic manner. However,
extraction and integration of this increasing amount of data have been proven to
be difficult because of the lack of a standardized vocabulary that describes the
properties of ion channels at the molecular level. To address this, we have
developed Ion Channel ElectroPhysiology Ontology (ICEPO), an ontology that allows
one to annotate the electrophysiological parameters of the voltage-gated class of
ion channels. This ontology is based on a three-state model of ion channel gating
describing the three conformations/states that an ion channel can adopt: closed,
open and inactivated. This ontology supports the capture of voltage-gated ion
channel electrophysiological data from the literature in a structured manner and
thus enables other applications such as querying and reasoning tools. Here, we
present ICEPO (ICEPO ftp
site:ftp://ftp.nextprot.org/pub/current_release/controlled_vocabularies/), as
well as examples of its use.