Biopathway Predictor statistics

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Associated diseases

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Biopathway Predictor specifications

Information


Unique identifier OMICS_06465
Name Biopathway Predictor
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

Taxon


  • Bacteria
    • Escherichia coli

Versioning


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Maintainer


  • person_outline Biopathway Predictor Team <>

Publication for Biopathway Predictor

Biopathway Predictor in publications

 (3)
PMCID: 5662904
PMID: 29123506
DOI: 10.3389/fmicb.2017.02060

[…] novel pathways using a “generalized enzyme reaction” according to the third level classification. each pathway was examined on a basis of thermodynamics for chemical formation and pathway length (). biopathway predictor allowed identification of non-native pathway based on a transformation of functional groups by known chemical reactions. the pathway can be further analyzed by various […]

PMCID: 4993179
PMID: 27435545
DOI: 10.1111/1751-7915.12385

[…] but recent developments in computer tools are very helpful for this. for instance, the pathway for 1,4‐butanediol production in e. coli could efficiently designed and tested by using the simpheny biopathway predictor (www.genomatica.com; yim et al., ). a number of such tools exist for prediction of pathways and selection of enzyme candidates, as reviewed elsewhere (shin et al., ). […]

PMCID: 3430982
PMID: 22969753
DOI: 10.3389/fmicb.2012.00313

[…] reported for the first time (yim et al., ). bioproduction of 1,4-bdo was accomplished through the development of two novel pathways (figure ), the design of which was facilitated using the simpheny biopathway predictor; a design algorithm that considers chemical structure to predict possible routes from central metabolite precursors to end-product targets (smolke, ). it is also noted that, […]


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Biopathway Predictor institution(s)
Genomatica, Inc, San Diego, CA, USA

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