Knowledgebase and repository · FAIRsharing
The Department of Energy Systems Biology Knowledgebase (KBase)
Compounds and reactionsBioassays and chemical biology
KBase is a large-scale bioinformatics system that enables users to upload their own data, analyze it (along with collaborator and public data), build increasingly realistic models, and share and publish their workflows and conclusions. KBase aims to provide an integrated environment where knowledge and insights are created and multiplied.
- Website
- Record in FAIRsharing (doi:10.25504/FAIRsharing.jsxqrk)
- Subjects: Applied Microbiology, Biochemistry, Biodiversity, Bioengineering, Bioinformatics, Biological Process Engineering, Biotechnology, Cheminformatics, Computational Biology, Ecology, Ecosystem Science, Environmental Science, Metataxonomics, Microbial Physiology, Microbiology, Molecular Microbiology, Molecular biology, Omics, Phenomics, Plant Cell Biology, Plant Ecology, Process Engineering, Soil Science, Structural Biology, Synthetic Biology, Systems Biology
Documentation, events and training
bio.tools API and tool documentation
- KBASE (same homepage)
TeSS Training materials (1)
TeSS Events (1)
What is known per question
The questions of the decision tree, with what FAIRsharing says about this repository. ✓ supported, ✗ excluded, ? not known. Your own answers are marked.
What kind of data do you want to archive?
- ? Spectra
- ? Crystal structures
- ? Computational chemistry
- ? Catalysis
- ✓ Compounds and reactions
- ✓ Bioassays and chemical biology
- ? Materials and polymers
- ? Images and microscopy
- ? Something else
Subjects: Applied Microbiology; Biochemistry; Biodiversity; Bioengineering; Bioinformatics; Biological Process Engineering; Biotechnology; Cheminformatics; Computational Biology; Ecology; Ecosystem Science; Environmental Science; Metataxonomics; Microbial Physiology; Microbiology; Molecular Microbiology; Molecular biology; Omics; Phenomics; Plant Cell Biology; Plant Ecology; Process Engineering; Soil Science; Structural Biology; Synthetic Biology; Systems Biology
Domains: Annotation; Biocuration; Bioenergy; Data analysis; Gene Knockout; Gene prediction; Model organisms; Network analysis; Prediction and recognition; bioactive entity; biological_process; microbe-host interaction phenotype; microbiome; pathway; sequencing assay
Does the journal or publisher you publish with require or recommend a repository?
- ? Yes
- ? No
- ? I do not know
FAIRsharing has no information on this.
Which discipline does your data belong to?
FAIRsharing has no information on this.
Which publisher?
FAIRsharing has no information on this.
Does your funder have requirements for where data is archived?
- ? Yes
- ? No
- ? I do not know
FAIRsharing has no information on this.
Which funder?
FAIRsharing has no information on this.
Does your institution offer a data repository?
- ? Yes
- ? No
- ? I do not know
FAIRsharing has no information on this.
Which institution?
FAIRsharing has no information on this.
Can your data be shared openly?
- ✗ Yes, openly available
- ? Yes, after an embargo
- ✓ Only with restrictions
Data access: controlled: KBase User Access (Sign-Up Required & User Authentication)
Data deposition: controlled: KBase Data Policy & Sources
How large is your dataset?
- ? Less than 1 GB
- ? 1 GB to 50 GB
- ? 50 GB to 1 TB
- ? More than 1 TB
FAIRsharing has no information on this.
Why can the data not be open?
- ? It contains personal data
- ? Commercial or intellectual property reasons
- ? Safety or security concerns
- ? A data sharing agreement limits it
FAIRsharing has no information on this.
Under which license do you want to share the data?
- ? CC0 / public domain
- ? CC BY
- ? Another open license
- ? Not decided yet
Licences: MIT License; Open Source Initiative Approved Licences
Do you need a persistent identifier, such as a DOI, for citing the data?
- ? Yes, a DOI
- ? Any persistent identifier will do
- ? No
FAIRsharing has no information on this.
Must the data be stored in a specific region?
- ✗ In the European Union
- ? In a specific country
- ✓ No preference
Country: United States
Must archiving be free of charge?
- ? Yes, free only
- ? A fee is fine
FAIRsharing has no information on this.
Which country?
✓ 1 of 15 in the list ✗ excludes 14
Country: United States