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Metatool specifications

Information


Unique identifier OMICS_06450
Name Metatool
Software type Package/Module
Interface Command line interface
Restrictions to use Academic or non-commercial use
Operating system Unix/Linux, Mac OS, Windows
Programming languages MATLAB
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


No version available

Publication for Metatool

Metatool citations

 (51)
library_books

A review of computational tools for design and reconstruction of metabolic pathways

2017
PMCID: 5851934
PMID: 29552648
DOI: 10.1016/j.synbio.2017.11.002

[…] ormation, graph-based methods can make prediction with similar accuracy as stoichiometry-based methods. Moreover, stoichiometry-based pathway search methods can operate on the S matrix alone (such as METATOOL 5.0 , optStoic , and XTMS ) to identify cofactor-balanced pathways. However, the reversibility of a reaction has to be defined as constraints alongside the S matrix while a directed graph inh […]

library_books

How important is thermodynamics for identifying elementary flux modes?

2017
PLoS One
PMCID: 5319754
PMID: 28222104
DOI: 10.1371/journal.pone.0171440

[…] ementation of both programs is performed with MATLAB 2015a, and they are freely available on our website https://www.lri.fr/~speres/EFM/ and figshare https://figshare.com/. They are both connected to METATOOL [] to compute the EFMs. Celldesigner [] was used to design the metabolic network and to visualize all the EFMs generated with EFMdraw. […]

library_books

Reconstruction of the Fatty Acid Biosynthetic Pathway of Exiguobacterium antarcticum B7 Based on Genomic and Bibliomic Data

2016
Biomed Res Int
PMCID: 4993939
PMID: 27595107
DOI: 10.1155/2016/7863706

[…] The calculation of elementary modes was performed in MATLAB using the Metatool toolbox [] (modo_elementar.m code in the Supplemental Information). A total of 13 elementary flux modes were found for the fatty acid biosynthesis pathway of E. antarcticum B7 (Additional Fil […]

library_books

Systematic Identification of Anti Fungal Drug Targets by a Metabolic Network Approach

2016
Front Mol Biosci
PMCID: 4911368
PMID: 27379244
DOI: 10.3389/fmolb.2016.00022

[…] 204 metabolites.The resulting model of central primary metabolism for A. fumigatus is illustrated in Figure , and given in full detail in the Supplementary Material (input files for calculations with Metatool see Supplementary Table ; all enzyme reactions considered are also given (Supplementary Table , with the mapping to gene identifiers given in Supplementary Table ) so that from the stoichiome […]

library_books

The Influence of Executive Functioning on Facial and Subjective Pain Responses in Older Adults

2016
PMCID: 4871961
PMID: 27274618
DOI: 10.1155/2016/1984827

[…] re stimulation) using facial descriptors extracted out of existing observational pain assessment scales. This extraction has led to the development of the Pain Assessment in Impaired Cognition (PAIC) metatool [] as part of a European funded COST action (TD1005) and we used all facial items of this PAIC tool (see ). All facial expressions were rated by an independent rater, trained by the principal […]

library_books

Orofacial Pain during Mastication in People with Dementia: Reliability Testing of the Orofacial Pain Scale for Non Verbal Individuals

2016
PMCID: 4761665
PMID: 26977118
DOI: 10.1155/2016/3123402

[…] is true for the literature on management of orofacial pain in this group [, ].During the international and interdisciplinary process towards the development the Pain Assessment in Impaired Cognition metatool [], the importance of developing a specific orofacial pain assessment tool was noted. Unfortunately, even though the recently developed Orofacial Mobilization-Observation-Behavior-Intensity-D […]

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Metatool institution(s)
Department of Bioinformatics, Friedrich-Schiller-University Jena, Jena, Germany

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