Cellular Microscopy Phenotype Ontology

Abbreviation: CMPO

General Information

Cellular Microscopy Phenotype Ontology (CMPO) is a species neutral ontology for describing general phenotypic observations relating to the whole cell, cellular components, cellular processes and cell populations

Homepage http://www.ebi.ac.uk/cmpo/

Countries that developed this resource Austria , Belgium , Croatia , Czech Republic , Denmark , Finland , France , Germany , Greece , Hungary , Iceland , Israel , Italy , Lithuania , Luxembourg , Malta , Montenegro , Netherlands , Norway , Portugal , Republic of Ireland , Slovakia , Spain , Sweden , Switzerland , United Kingdom

Created in 2013

Taxonomic range

All

Knowledge Domains

Subjects

How to cite this record FAIRsharing.org: CMPO; Cellular Microscopy Phenotype Ontology; DOI: https://doi.org/10.25504/FAIRsharing.knp11s; Last edited: Feb. 13, 2020, 9:30 a.m.; Last accessed: Oct 24 2020 11:02 a.m.

Publication for citation The cellular microscopy phenotype ontology. Jupp S,Malone J,Burdett T,Heriche JK,Williams E,Ellenberg J,Parkinson H,Rustici G; J Biomed Semantics ; 2016; 10.1186/s13326-016-0074-0;

This record is maintained by gabriellarustici ORCID

Record added: Sept. 17, 2015, 9:11 a.m.
Record updated: Feb. 13, 2020, 9:30 a.m. by The FAIRsharing Team.

Show edit history

Edits to 'https://fairsharing.org/FAIRsharing.knp11s' by 'The FAIRsharing Team' at 09:30, 13 Feb 2020 (approved):

	'organizations' has been modified:
		Before:
			Biotechnology and Biological Sciences Research Council (BBSRC), UK|https://bbsrc.ukri.org|Funds
			BioMedBridges, Europe|http://www.biomedbridges.eu/|Funds
			Systems Microscopy Network of Excellence, European Union|http://systemsmicroscopy.eu|Funds
		After:
			Biotechnology and Biological Sciences Research Council (BBSRC), UK|https://bbsrc.ukri.org|Funds
			BioMedBridges, Europe|http://www.biomedbridges.eu/|Funds
			Systems Microscopy Network of Excellence, European Union|http://systemsmicroscopy.eu|Funds
			European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, UK|https://www.ebi.ac.uk/|Maintains
		Added:
			European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, UK|https://www.ebi.ac.uk/|Maintains
		Removed:

	'supportLinks' has been modified:
		Before:
			TeSS training|https://tess.elixir-europe.org/materials/cellular-microscopy-phenotype-ontology-cmpo-quick-tour
			contact form|https://www.ebi.ac.uk/panda/jira/secure/CreateIssueDetails!init.jspa?pid=10421&components=10883&issuetype=2&summary=CMPO+content+requested+website
			email|jupp@ebi.ac.uk
			online documentation|https://github.com/EBISPOT/CMPO
		After:
			TeSS training|https://tess.elixir-europe.org/materials/cellular-microscopy-phenotype-ontology-cmpo-quick-tour
			email|ontology-tools-support@ebi.ac.uk
			email|jupp@ebi.ac.uk
			forum|https://github.com/EBISPOT/cmpo/issues
			online documentation|https://github.com/EBISPOT/CMPO
		Added:
			email|ontology-tools-support@ebi.ac.uk
			forum|https://github.com/EBISPOT/cmpo/issues
		Removed:
			contact form|https://www.ebi.ac.uk/panda/jira/secure/CreateIssueDetails!init.jspa?pid=10421&components=10883&issuetype=2&summary=CMPO+content+requested+website

	'description' has been modified:
		Before: Cellular Microscopy Phenotype Ontology (CMPO), a species neutral ontology for describing general phenotypic observations relating to the whole cell, cellular components, cellular processes and cell populations
		After: Cellular Microscopy Phenotype Ontology (CMPO) is a species neutral ontology for describing general phenotypic observations relating to the whole cell, cellular components, cellular processes and cell populations

	'countries' has been modified:
		Before:
			United Kingdom
		After:
			Austria
			Belgium
			Croatia
			Czech Republic
			Denmark
			Finland
			France
			Germany
			Greece
			Hungary
			Iceland
			Israel
			Italy
			Lithuania
			Luxembourg
			Malta
			Montenegro
			Netherlands
			Norway
			Portugal
			Republic of Ireland
			Slovakia
			Spain
			Sweden
			Switzerland
			United Kingdom
		Added:
			Austria
			Belgium
			Croatia
			Czech Republic
			Denmark
			Finland
			France
			Germany
			Greece
			Hungary
			Iceland
			Israel
			Italy
			Lithuania
			Luxembourg
			Malta
			Montenegro
			Netherlands
			Norway
			Portugal
			Republic of Ireland
			Slovakia
			Spain
			Sweden
			Switzerland
		Removed:

	'licences' has been modified:
		Before:
			Apache License 2.0|http://www.apache.org/licenses/LICENSE-2.0|Data
		After:
			Apache License 2.0|http://www.apache.org/licenses/LICENSE-2.0|Software
			EBI Terms of Use|http://www.ebi.ac.uk/about/terms-of-use|Data
		Added:
			Apache License 2.0|http://www.apache.org/licenses/LICENSE-2.0|Software
			EBI Terms of Use|http://www.ebi.ac.uk/about/terms-of-use|Data
		Removed:
			Apache License 2.0|http://www.apache.org/licenses/LICENSE-2.0|Data

	'onto_disciplines' has been modified:
		Before:
			Life Science
			Ontology and Terminology
		After:
			Cell Biology
			Ontology and Terminology
		Added:
			Cell Biology
		Removed:
			Life Science

	'dataProcesses' has been modified:
		Before:
			Search via OLS
			Download owl file
			Download obo file
			Browse in OLS
		After:
			Download (OWL)
			Download (OBO)
			Browse / Search in OLS
		Added:
			Download (OWL)
			Download (OBO)
			Browse / Search in OLS
		Removed:
			Search via OLS
			Download owl file
			Download obo file
			Browse in OLS

	'related_standards' has been modified:
		Before:
			Gene Ontology
			Phenotypic QualiTy Ontology
		After:
			Gene Ontology
			Information Artifact Ontology
			Ascomycete Phenotype Ontology
			Mammalian Phenotype Ontology
			Phenotypic QualiTy Ontology
			Basic Formal Ontology
			Fission Yeast Phenotype Ontology
			Dublin Core Metadata Element Set
			OBO Relations Ontology
		Added:
			Information Artifact Ontology
			Ascomycete Phenotype Ontology
			Mammalian Phenotype Ontology
			Basic Formal Ontology
			Fission Yeast Phenotype Ontology
			Dublin Core Metadata Element Set
			OBO Relations Ontology
		Removed:

	'onto_domains' has been modified:
		Before:
			cellular_component
			microscopy
			phenotype
		After:
			cell
			cellular_component
			microscopy
			phenotype
		Added:
			cell
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.knp11s' by 'The FAIRsharing Team' at 13:25, 15 Jan 2019 (approved):

	'licences' has been modified:
		Before:
		After:
			Apache License 2.0|http://www.apache.org/licenses/LICENSE-2.0|Data
		Added:
			Apache License 2.0|http://www.apache.org/licenses/LICENSE-2.0|Data
		Removed:

	'organizations' has been modified:
		Before:
			Biotechnology and Biological Sciences Research Council (BBSRC), UK|https://bbsrc.ukri.org|Funds
			BioMedBridges, Europe|http://www.biomedbridges.eu/|Funds
			EU FP7 BioMedBridges|http://www.biomedbridges.eu/|Funds
			EU FP7 Systems Microscopy|http://systemsmicroscopy.eu/|Funds
			Swiss Institute of Bioinformatics (SIB), Switzerland|https://www.sib.swiss|Maintains
		After:
			Biotechnology and Biological Sciences Research Council (BBSRC), UK|https://bbsrc.ukri.org|Funds
			BioMedBridges, Europe|http://www.biomedbridges.eu/|Funds
			Systems Microscopy Network of Excellence, European Union|http://systemsmicroscopy.eu|Funds
		Added:
			Systems Microscopy Network of Excellence, European Union|http://systemsmicroscopy.eu|Funds
		Removed:
			EU FP7 BioMedBridges|http://www.biomedbridges.eu/|Funds
			EU FP7 Systems Microscopy|http://systemsmicroscopy.eu/|Funds
			Swiss Institute of Bioinformatics (SIB), Switzerland|https://www.sib.swiss|Maintains

	'miriam_id' has been modified:
		Before: None
		After: 

	'dataProcesses' has been modified:
		Before:
			search
			Download owl file
			Download obo file
		After:
			Search via OLS
			Download owl file
			Download obo file
			Browse in OLS
		Added:
			Search via OLS
			Browse in OLS
		Removed:
			search

Edits to 'https://fairsharing.org/FAIRsharing.knp11s' by 'The FAIRsharing Team' at 11:21, 21 Nov 2018 (approved):

	'domains' has been modified:
		Before:
			Cellular component
			Life Science
			Microscopy
			Ontology and terminology
			Phenotype
		After:
			Cellular Component
			Life Science
			Microscopy
			Ontology and terminology
			Phenotype
		Added:
			Cellular Component
		Removed:
			Cellular component

In Collections

Cell Migration Standardisation Organisation

Support

General

support email	Helpdesk
support email	jupp@ebi.ac.uk
forum	GitHub Issue Tracker
online documentation	GitHub Repository

Additional Information

Contact

Gabriella Rustici ORCID

External Links

Bioportal

http://bioportal.bioontology.org/ontologies/CMPO

TeSS training resources

Cellular microscopy phenotype ontology cmpo quick tour

Tools

Zooma	https://www.ebi.ac.uk/spot/zooma/
NCBO Annotator	http://bioportal.bioontology.org/annotator

Schemas

No XSD schemas defined

Access / Retrieve Data

Conditions of Use

Applies to: Data use

EMBL-EBI Terms of Use

Applies to: Database software

Apache License 2.0

Data Release

Download (OWL)	https://www.ebi.ac.uk/cmpo/cmpo.owl
Download (OBO)	https://www.ebi.ac.uk/cmpo/cmpo.obo

Data Access

Browse / Search in OLS

https://www.ebi.ac.uk/ols/ontologies/cmpo

Publications

The cellular microscopy phenotype ontology.

Jupp S,Malone J,Burdett T,Heriche JK,Williams E,Ellenberg J,Parkinson H,Rustici G
J Biomed Semantics 2016

View Paper (PubMed) View Publication

CMPO Ontology Display

View in BioPortal.

Disclaimer: This widget assumes the availability of the ontology resources in the NCBO BioPortal.

Related Standards

Reporting Guidelines

No guidelines defined

Terminology Artifacts

Models and Formats

No syntax standards defined

Identifier Schemas

No identifier schema standards defined

Metrics

No metrics standards defined

Related Databases (2)

MitoCheck
MitoCheck aims to integrate information on cellular function of human genes while giving access to supporting information such as microscopy images of phenotypes.

Image Data Resource
IDR is a prototype platform for publishing, mining and integrating bioimaging data at scale, following the Euro-BioImaging/ELIXIR imaging strategy using the OMERO and Bio-Formats open source software built by the Open Microscopy Environment. Deployed on an OpenStack cloud running on the EMBL-EBI’s Embassy resource, it includes image data linked to independent studies from genetic, RNAi, chemical, localisation and geographic high content screens, super-resolution microscopy, and digital pathology.

Implementing Policies

This record is not implemented by any policy.

Credit

Record Maintainer

This record is maintained by gabriellarustici ORCID

Funds

Biotechnology and Biological Sciences Research Council (BBSRC), UK (Government body)
BioMedBridges, Europe (Consortium)
Systems Microscopy Network of Excellence, European Union (Consortium)

Maintains

European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire, UK (Research institute) Lead

Grant Number(s)

BB/M018423/1 (Biotechnology and Biological Sciences Research Council (BBSRC), UK)
EU FP7 258068 (Systems Microscopy Network of Excellence, European Union)
EU FP7 284209 (BioMedBridges, Europe)

Cellular Microscopy Phenotype Ontology

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