scFBA specifications

Information


Unique identifier OMICS_31038
Name scFBA
Alternative name single-cell Flux Balance Analysis
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input data A scRNA-seq dataset.
Operating system Unix/Linux
Programming languages MATLAB
Computer skills Advanced
Stability Stable
Requirements
COBRA Toolbox
Maintained Yes

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Versioning


No version available

Maintainer


  • person_outline Chiara Damiani

Publication for single-cell Flux Balance Analysis

scFBA citation

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Evolution of a Heavy Metal Homeostasis/Resistance Island Reflects Increasing Copper Stress in Enterobacteria

2016
Genome Biol Evol
PMCID: 4824010
PMID: 26893455
DOI: 10.1093/gbe/evw031

[…] , excluding all other instances of icus. icus genes are more evenly distributed among Enterobacteria taxa and do not appear to conflict with the species phylogeny when CHASRI genes are excluded.cus-R-SCFBA genes in clusters (icus and CHASRI) split from all other assemblages of their constituent genes in ML trees, but genes in pcoABCD clusters appear in six clans in highly correlated pcoA and pcoB […]

scFBA institution(s)
Department of Informatics, Systems and Communication, University Milan-Bicocca, Milan, Italy; SYSBIO Centre of Systems Biology, Milan, Italy; Department of Biotechnology and Biosciences, University Milan-Bicocca, Milan, Italy; Department of Statistics and Quantitative Methods, University Milan-Bicocca, Milan, Italy; Department of Molecular Cell Physiology, Faculty of Earth and Life Sciences, VU University, Amsterdam, The Netherlands; Manchester Centre for Integrative Systems Biology, School of Chemical Engineering and Analytical Science, University of Manchester, Manchester, UK; Swammerdam Institute for Life Sciences, Faculty of Science, University of Amsterdam, Amsterdam, The Netherlands
scFBA funding source(s)
Supported by SYSBIO - within the Italian Roadmap for ESFRI Research Infrastructures and by FLAGERA grant ITFoC.

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