Results 11 to 20 of about 345,747 (340)
Estimation of the number of extreme pathways for metabolic networks [PDF]
BMC Bioinformatics, 2007 Abstract Background The set of extreme pathways (ExPa), {p i }, defines the convex basis vectors used for the mathematical characterization of the null space of the stoichiometric matrix for biochemical reaction networks.
Matthew Yeung +2 more
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Inferring qualitative relations in genetic networks and metabolic pathways [PDF]
Bioinformatics, 2000 Abstract Motivation: Inferring genetic network architecture from time series data of gene expression patterns is an important topic in bioinformatics. Although inference algorithms based on the Boolean network were proposed, the Boolean network was not sufficient as a model of a genetic network.
Satoru Kuhara +2 more
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Leveraging heterogeneous network embedding for metabolic pathway prediction [PDF]
Bioinformatics, 2020 AbstractMotivationMetabolic pathway reconstruction from genomic sequence information is a key step in predicting regulatory and functional potential of cells at the individual, population and community levels of organization. Although the most common methods for metabolic pathway reconstruction are gene-centric e.g.
Basher, Abdur Rahman M. A. +1 more
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Global connectivity in genome-scale metabolic networks revealed by comprehensive FBA-based pathway analysis [PDF]
BMC Microbiology, 2021 Background Graph-based analysis (GBA) of genome-scale metabolic networks has revealed system-level structures such as the bow-tie connectivity that describes the overall mass flow in a network.
Yajie Gao +4 more
doaj +2 more sources
MCR-ALS on metabolic networks: Obtaining more meaningful pathways [PDF]
Chemometrics and Intelligent Laboratory Systems, 2015 Research in this study was partially supported by the Spanish Ministry of Science and Innovation and FEDER funds from the European Union through grants DPI2011-28112-C04-01 and DPI2011-28112-C04-02. The authors are also grateful to Biopolis SL for supporting this research.
Folch-Fortuny, Abel +5 more
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Pathway Tools Visualization of Organism-Scale Metabolic Networks [PDF]
Metabolites, 2021 Metabolomics, synthetic biology, and microbiome research demand information about organism-scale metabolic networks. The convergence of genome sequencing and computational inference of metabolic networks has enabled great progress toward satisfying that demand by generating metabolic reconstructions from the genomes of thousands of sequenced organisms.
Suzanne Paley +4 more
openaire +3 more sources
Biomedicines, 2022 The immune function is closely related to iron (Fe) homeostasis and allostasis. The aim of this bioinformatics-assisted review was twofold; (i) to update the current knowledge of Fe metabolism and its relationship to the immune system, and (ii) to ...
Diego A. Bonilla +9 more
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Alterations in metabolic pathways and networks in Alzheimer’s disease [PDF]
Translational Psychiatry, 2013 The pathogenic mechanisms of Alzheimer's disease (AD) remain largely unknown and clinical trials have not demonstrated significant benefit. Biochemical characterization of AD and its prodromal phase may provide new diagnostic and therapeutic insights.
Rima Kaddurah-Daouk +15 more
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Clustering analysis of tumor metabolic networks
BMC Bioinformatics, 2020 Background Biological networks are representative of the diverse molecular interactions that occur within cells. Some of the commonly studied biological networks are modeled through protein-protein interactions, gene regulatory, and metabolic pathways ...
Ichcha Manipur +3 more
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MetNet: A two-level approach to reconstructing and comparing metabolic networks.
PLoS ONE, 2021 Metabolic pathway comparison and interaction between different species can detect important information for drug engineering and medical science. In the literature, proposals for reconstructing and comparing metabolic networks present two main problems ...
Nicoletta Cocco +3 more
doaj +1 more source