Biological Expression Language

Abbreviation: BEL

General Information

BEL is a language for representing scientific findings in the life sciences in a reusable, shareable, and computable form. BEL is designed to represent scientific findings by capturing causal and correlative relationships in context, where context can include information about the biological and experimental system in which the relationships were observed, the supporting publications cited and the process of curation. BEL is intended as a knowledge capture and interchange medium, supporting the operation of systems that integrate knowledge derived from independent efforts. The language is designed to be use-neutral, facilitating the storage and use of structured knowledge for inference by applications through a knowledge assembly process that can create computable biological networks. While BEL does not prescribe any particular assembly process or any particular knowledge format for the output of an assembly process, a suite of software components called the BEL Framework provides everything necessary to create, compile, assemble, and deliver computable knowledge models to BEL-aware applications. The current version of BEL provides the means to describe biological interactions qualitatively but not to quantify the magnitude or rate of these interactions. This limitation is by design because this quantitative information has significant variability and is not consistently reported in the literature. It is our hope that future versions of BEL can accommodate these additional data.

Homepage https://bel.bio

Countries that developed this resource United States

Created in 2003

Taxonomic range

All

Subjects

How to cite this record FAIRsharing.org: BEL; Biological Expression Language; DOI: https://doi.org/10.25504/FAIRsharing.dp0jvd; Last edited: July 31, 2019, 10:50 a.m.; Last accessed: Feb 26 2021 9:44 a.m.

This record is maintained by wshayes

Record updated: July 30, 2019, 1:07 p.m. by wshayes.

Show edit history

Edits to 'https://fairsharing.org/FAIRsharing.dp0jvd' by 'wshayes' at 13:07, 30 Jul 2019 (approved):

	'supportLinks' has been modified:
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			blog|https://medium.com/bel-news
			forum|https://forum.bel.bio
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			email|support@bel.bio
			forum|https://forum.bel.bio
			online documentation|https://language.bel.bio
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			email|support@bel.bio
			online documentation|https://language.bel.bio
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			blog|https://medium.com/bel-news

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Edits to 'https://fairsharing.org/FAIRsharing.dp0jvd' by 'wshayes' at 13:04, 30 Jul 2019 (approved):

	'contactEmail' has been modified:
		Before: support@openbel.org
		After: support@bel.bio

	'supportLinks' has been modified:
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			blog|https://medium.com/bel-news
			forum|https://groups.google.com/forum/#!forum/openbel-discuss
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			blog|https://medium.com/bel-news
			forum|https://forum.bel.bio
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			forum|https://groups.google.com/forum/#!forum/openbel-discuss

	'contact' has been modified:
		Before: The Linux Foundation 
		After: William Hayes

	'homepage' has been modified:
		Before: http://www.openbel.org/bel-expression-language
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Edits to 'https://fairsharing.org/FAIRsharing.dp0jvd' by 'wshayes' at 18:49, 17 Jun 2019 (approved):

	'contactORCID' has been modified:
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		After: https://orcid.org/0000-0003-0728-781X

Edits to 'https://fairsharing.org/FAIRsharing.dp0jvd' by 'wshayes' at 17:43, 17 Jun 2019 (approved):

	'licences' has been modified:
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			Apache License 2.0|http://www.apache.org/licenses/LICENSE-2.0|Software
			Creative Commons Attribution 4.0 International (CC BY 4.0)|https://creativecommons.org/licenses/by/4.0/|Data
		Added:
			Apache License 2.0|http://www.apache.org/licenses/LICENSE-2.0|Software
			Creative Commons Attribution 4.0 International (CC BY 4.0)|https://creativecommons.org/licenses/by/4.0/|Data
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			Linux Foundation Collaborative Project, San Francisco, CA, USA|http://collabprojects.linuxfoundation.org/|Maintains
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			I2b2 Transmart Foundation|https://transmartfoundation.org/|Undefined
			BEL.bio|https://bel.bio|Maintains
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			I2b2 Transmart Foundation|https://transmartfoundation.org/|Undefined
			BEL.bio|https://bel.bio|Maintains
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			Linux Foundation Collaborative Project, San Francisco, CA, USA|http://collabprojects.linuxfoundation.org/|Maintains

	'supportLinks' has been modified:
		Before:
			FAQ|http://www.openbel.org/faq
			blog|http://www.openbel.org/blog
			contact form|http://www.openbel.org/contact
			email|support@openbel.org
			forum|https://groups.google.com/forum/#!forum/openbel-discuss
			online documentation|http://wiki.openbel.org/display/BFD/BEL+Framework+Documentation+V2.0+%28Current+version%29+Home
			online documentation|http://wiki.openbel.org/display/home/Home
			online documentation|https://github.com/OpenBEL
			twitter|@OpenBEL
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			blog|https://medium.com/bel-news
			forum|https://groups.google.com/forum/#!forum/openbel-discuss
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			blog|https://medium.com/bel-news
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			FAQ|http://www.openbel.org/faq
			blog|http://www.openbel.org/blog
			contact form|http://www.openbel.org/contact
			email|support@openbel.org
			online documentation|http://wiki.openbel.org/display/BFD/BEL+Framework+Documentation+V2.0+%28Current+version%29+Home
			online documentation|http://wiki.openbel.org/display/home/Home
			online documentation|https://github.com/OpenBEL
			twitter|@OpenBEL

	'description' has been modified:
		Before: BEL is a language for representing scientific findings in the life sciences in a computable form. BEL is designed to represent scientific findings by capturing causal and correlative relationships in context, where context can include information about the biological and experimental system in which the relationships were observed, the supporting publications cited and the process of curation.
BEL is intended as a knowledge capture and interchange medium, supporting the operation of systems that integrate knowledge derived from independent efforts. The language is designed to be use-neutral, facilitating the storage and use of structured knowledge for inference by applications through a knowledge assembly process that can create computable biological networks. While BEL does not prescribe any particular assembly process or any particular knowledge format for the output of an assembly process, a suite of software components called the BEL Framework provides everything necessary to create, compile, assemble, and deliver computable knowledge models to BEL-aware applications.
The current version of BEL provides the means to describe biological interactions qualitatively but not to quantify the magnitude or rate of these interactions. This limitation is by design because this quantitative information has significant variability and is not consistently reported in the literature. It is our hope that future versions of BEL can accommodate these additional data, and that YOU are able to work together with the OpenBEL Consortium to make this happen.
		After: BEL is a language for representing scientific findings in the life sciences in a reusable, shareable, and computable form. BEL is designed to represent scientific findings by capturing causal and correlative relationships in context, where context can include information about the biological and experimental system in which the relationships were observed, the supporting publications cited and the process of curation.
BEL is intended as a knowledge capture and interchange medium, supporting the operation of systems that integrate knowledge derived from independent efforts. The language is designed to be use-neutral, facilitating the storage and use of structured knowledge for inference by applications through a knowledge assembly process that can create computable biological networks. While BEL does not prescribe any particular assembly process or any particular knowledge format for the output of an assembly process, a suite of software components called the BEL Framework provides everything necessary to create, compile, assemble, and deliver computable knowledge models to BEL-aware applications.
The current version of BEL provides the means to describe biological interactions qualitatively but not to quantify the magnitude or rate of these interactions. This limitation is by design because this quantitative information has significant variability and is not consistently reported in the literature. It is our hope that future versions of BEL can accommodate these additional data.

Edits to 'https://fairsharing.org/FAIRsharing.dp0jvd' by 'The FAIRsharing Team' at 20:40, 14 May 2019 (approved):

	'supportLinks' has been modified:
		Before:
			FAQ|http://www.openbel.org/faq
			blog|http://www.openbel.org/blog
			contact form|http://www.openbel.org/contact
			email| support@openbel.org
			forum|https://groups.google.com/forum/#!forum/openbel-discuss
			online documentation|https://github.com/OpenBEL
			online documentation|http://wiki.openbel.org/display/BFD/BEL+Framework+Documentation+V2.0+%28Current+version%29+Home
			online documentation|http://wiki.openbel.org/display/home/Home
			twitter|@OpenBEL
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			FAQ|http://www.openbel.org/faq
			blog|http://www.openbel.org/blog
			contact form|http://www.openbel.org/contact
			email|support@openbel.org
			forum|https://groups.google.com/forum/#!forum/openbel-discuss
			online documentation|https://github.com/OpenBEL
			online documentation|http://wiki.openbel.org/display/BFD/BEL+Framework+Documentation+V2.0+%28Current+version%29+Home
			online documentation|http://wiki.openbel.org/display/home/Home
			twitter|@OpenBEL
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			email|support@openbel.org
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			email| support@openbel.org

	'yearOfCreation' has been modified:
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		After: 2003

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In Collections

H2020 Phenome and Metabolome aNalysis (PhenoMenal) Project

Support

General

support email	BEL.bio Support mailbox
forum	BEL Discussion Forum
online documentation	BEL Language Documentation

Additional Information

Contact

William Hayes ORCID

Tools

BEL python library

https://github.com/belbio/bel

Schemas

Name: openBEL
Version: 1.0

Download

Access / Retrieve Data

Conditions of Use

Applies to: Data use

Creative Commons Attribution 4.0 International (CC BY 4.0)

Applies to: Database software

Apache License 2.0

Data Release

BEL Resources

http://resources.bel.bio

Publications

No publications available

Related Standards

Reporting Guidelines

No guidelines defined

Terminology Artifacts

No semantic standards defined

Models and Formats

No syntax standards defined

Identifier Schemas

No identifier schema standards defined

Metrics

No metrics standards defined

Related Databases (1)

The Network Data Exchange (NDEx)
NDEx is an online commons where scientists can upload, share, and publicly distribute biological networks and pathway models. The NDEx Project maintains a web-accessible public server, a documentation website, provides seamless connectivity to Cytoscape as well as programmatic access using a variety of languages including Python and Java. NDEx users can easily create accounts or sign in using their Google credentials thanks to the supported open authentication (OAUTH2) method and mint DOIs for their networks to use in publications or include in other resources for long term access.

Implementing Policies

This record is not implemented by any policy.

Credit

Record Maintainer

This record is maintained by wshayes

Maintains

BEL.bio Lead

Undefined

I2b2 Transmart Foundation (Charitable foundation)

Biological Expression Language

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	xbel-annotations.xsd
	xbel.xsd