Pickaxe: a Python library for the prediction of novel metabolic reactions

Background Biochemical reaction prediction tools leverage enzymatic promiscuity rules to generate reaction networks containing novel compounds and reactions. The resulting reaction networks can be used for multiple applications such as designing novel biosynthetic pathways and annotating untargeted...

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Bibliographic Details
Published in:	BMC bioinformatics Vol. 24; no. 1; pp. 106 - 15
Main Authors:	Shebek, Kevin M., Strutz, Jonathan, Broadbelt, Linda J., Tyo, Keith E. J.
Format:	Journal Article
Language:	English
Published:	London BioMed Central 22.03.2023 BioMed Central Ltd Springer Nature B.V BMC
Subjects:	Algorithms Annotations Applications programs BASIC BIOLOGICAL SCIENCES Biochemical Phenomena Biochemistry Biochemistry & Molecular Biology Bioinformatics Biological research Biology, Experimental Biomedical and Life Sciences Biosynthetic design Biotechnology & Applied Microbiology Chemical fingerprinting Chemical properties Chemical reactions Computational Biology/Bioinformatics Computer Appl. in Life Sciences Documentation E coli Enzyme promiscuity Enzymes Escherichia coli - genetics Filters Identification and classification Life Sciences Mathematical & Computational Biology Metabolic regulation Metabolism Metabolite identification Metabolites Metabolome Metabolomics Microarrays Molecular weight Network generation Networks Open source software Public software Python Python (Programming language) Retrobiosynthesis Software Yeast United States Network generation Retrobiosynthesis Enzyme promiscuity Biosynthetic design Metabolite identification
ISSN:	1471-2105, 1471-2105
Online Access:	Get full text
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