Annotation of rule-based models with formal semantics to enable creation, analysis, reuse and visualization
- Submitting institution
-
University of Keele
- Unit of assessment
- 11 - Computer Science and Informatics
- Output identifier
- 343
- Type
- D - Journal article
- DOI
-
10.1093/bioinformatics/btv660
- Title of journal
- Bioinformatics
- Article number
- -
- First page
- 908
- Volume
- 32
- Issue
- 6
- ISSN
- 1367-4803
- Open access status
- Out of scope for open access requirements
- Month of publication
- November
- Year of publication
- 2015
- URL
-
https://academic.oup.com/bioinformatics/article/32/6/908/1743798
- Supplementary information
-
-
- Request cross-referral to
- -
- Output has been delayed by COVID-19
- No
- COVID-19 affected output statement
- -
- Forensic science
- No
- Criminology
- No
- Interdisciplinary
- Yes
- Number of additional authors
-
9
- Research group(s)
-
-
- Citation count
- 8
- Proposed double-weighted
- No
- Reserve for an output with double weighting
- No
- Additional information
- This is the first paper to introduce annotations for rule-based models. Misirli and Cavaliere developed this annotation standardisation framework for rule-based models (EP/J02175X/1). Complementing modelling languages such as Kappa and BioNetGen, the framework supports automated analysis, composition and visualisation of rule-based models. Use of the frameworkincludes development of a compiler to modularly compose genetic circuits (https://doi.org/gfnk2g). The research informs the unification of annotations across biological models (https://doi.org/fgkc).
- Author contribution statement
- -
- Non-English
- No
- English abstract
- -
