Repository details
CyberCell Database
Name of repository
CyberCell Database
Additional name(s)
- CCDB
- CCDB
Repository URL
Subject(s)
Description
The CyberCell database (CCDB) is a comprehensive collection of detailed enzymatic, biological, chemical, genetic, and molecular biological data about E. coli (strain K12, MG1655). It is intended to provide sufficient information and querying capacity for biologists and computer scientists to use computers or detailed mathematical models to simulate all or part of a bacterial cell at a nanoscopic (10-9 m), mesoscopic (10-8 m).The CyberCell database CCDB actually consists of 4 browsable databases: 1) the main CyberCell database (CCDB - containing gene and protein information), 2) the 3D structure database (CC3D – containing information for structural proteomics), 3) the RNA database (CCRD – containing tRNA and rRNA information), and 4) the metabolite database (CCMD – containing metabolite information). Each of these databases is accessible through hyperlinked buttons located at the top of the CCDB homepage. All CCDB sub-databases are fully web enabled, permitting a wide variety of interactive browsing, search and display operations. and microscopic (10-6 m) level.
Content type(s)
Persistent identifier(s) of the repository
- RRID:SCR_013423
- RRID:nif-0000-02644
Repository size
4.252 protein coding genes; 478 x-ray structures; 65 NMR structures; 770 model structures; 2.976 without 3D structures; 2.790 cytoplasmic proteins; 152 periplasmic proteins; 1.053 membrane proteins; 297 essential genes; 2.052 non essential genes; 4.190 translated proteins, 3.810 post-translated proteins; 7.941 Translated + Mature Proteins;
Repository type(s)
- disciplinary
Research data repository language(s)
- English
Data and/or service provider
- data provider
Institution name
Identifier(s)
- ROR:013s3gf12
Country
Type(s) of responsibility
- funding
Type of institution
non-profit
Start date of responsibility
2004
Institution name
Additional name(s)
- UAlberta
Contact(s)
Country
Type(s) of responsibility
- general
- technical
Type of institution
non-profit
Start date of responsibility
2004
Institution name
Additional name(s)
- Diversification de l'économie de l'Ouest Canada
- WD
- DEO
Identifier(s)
- ROR:002sgqx17
Country
Type(s) of responsibility
- funding
Type of institution
non-profit
Start date of responsibility
2004
Policies (1)
Policy Name
Database access
Type of access to research data repository
open
Database licenses (1)
Database License
Data access (1)
Type of access to data
open
Data licenses (1)
DataLicense
Data upload (1)
Type of data upload
restricted
Data upload restriction type(s)
- other
Persistent identifier system(s)
- DOI
Name of the repository software
- unknown
Versioning
yes
Data citation guideline
Enhanced Publication
unknown
Quality management
yes
Remarks
Remarks
Project CyberCell is also part of the International E. coli Alliance, an multi-national project aimed at coordinating E. coli simulation and E. coli bioinformatics efforts across Canada (Project CyberCell), the US (EMC2), Japan (E-Cell) and the European Community (SiliconCell, GSK)
Entry date
2012-12-06
Last update
2021-04-21
Cite this re3data.org record:
re3data.org: CyberCell Database; editing status 2021-04-21; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3B018 last accessed: 2024-04-24- Current projects
- EOSC FAIR-IMPACT
- re3data COREF
-
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re3data.org
has waived all copyright and related or neighboring rights to
the database entries of re3data.org.
-
Except where otherwise noted, content on this site is licensed under a
Creative Commons Attribution 4.0 International License
.
- Cite this service: re3data.org - Registry of Research Data Repositories. https://doi.org/10.17616/R3D last accessed: 2024-04-24
