standards > model/format > DOI:10.25504/FAIRsharing.kfqVQ7
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ready BcForms Grammar


General Information
The BcForms represents complexes as a sets of subunits, including their stoichiometries, and a set of interchain/intersubunit crosslinks. Furthermore, BcForms can be combined with BpForms and SMILES descriptions of subunits to calculate properties of complexes. BcForms descriptions of complexes consist of two parts: subunit composition of the complex, and interchain crosslinks. The BcForms grammar is defined in Lark syntax, which is based on EBNF syntax.

Homepage https://www.bcforms.org/#grammar

Countries that developed this resource United States

Created in 2019

Taxonomic range




How to cite this record FAIRsharing.org: BcForms Grammar; BcForms Grammar; DOI: https://doi.org/10.25504/FAIRsharing.kfqVQ7; Last edited: March 16, 2020, 1:42 p.m.; Last accessed: Jul 28 2021 2:47 a.m.

Publication for citation  BpForms and BcForms: Tools for concretely describing non-canonical polymers and complexes to facilitate comprehensive biochemical networks Paul F. Lang, Yassmine Chebaro, Xiaoyue Zheng, John A. P. Sekar, Bilal Shaikh, Darren A. Natale, Jonathan R. Karr; arXiv ; 2019.


This record is maintained by jonrkarr  ORCID

Record added: Nov. 6, 2019, 11:15 a.m.
Record updated: Feb. 27, 2020, 8:49 a.m. by The FAIRsharing Team.

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Support

General

support email info@karrlab.org
help Git pull request
online documentation Source code
online documentation BcForms Project
online documentation Tutorial for the Python API
online documentation Query builder for the REST API

Additional Information

Contact Jonathan Karr   ORCID

Tools

    No tools defined


Schemas

No XSD schemas defined


Access / Retrieve Data

Conditions of Use

Applies to: Data use

Data Release

Download Grammar Definition https://raw.githubusercontent.com/KarrLab/bcforms/master/bcforms/gramm ...

REST Web Services

BcForms REST API https://www.bcforms.org/api/

Other Web Services

BcForms Python API https://docs.karrlab.org/bcforms/master/0.0.2/


Publications

BpForms and BcForms: Tools for concretely describing non-canonical polymers and complexes to facilitate comprehensive biochemical networks

Paul F. Lang, Yassmine Chebaro, Xiaoyue Zheng, John A. P. Sekar, Bilal Shaikh, Darren A. Natale, Jonathan R. Karr
arXiv 2019

Link to Publication

Related Standards

Reporting Guidelines

No guidelines defined

Terminology Artifacts

No semantic standards defined

Models and Formats

Identifier Schemas

No identifier schema standards defined

Metrics

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Implementing Policies

This record is not implemented by any policy.


Credit

Record Maintainer

Funds

Maintains

Grant Number(s)

  • INSPIRE (National Science Foundation (NSF), USA)

  • MIRA R35 award (National Institutes of Health (NIH), Bethesda, MD, USA)

  • P41 award (National Institutes of Health (NIH), Bethesda, MD, USA)