ArticleBioinformatics (Oxford, England)2008
MetaRoute: fast search for relevant metabolic routes for interactive network navigation and visualization.
Article in Bioinformatics (Oxford, England), 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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Who cites it
25 citing papers in PubMed.
- Atomic elementary flux modes explain the steady state flow of metabolites in large-scale flux networks.Cell reports methods · 2026Article
- PyMiner: A method for metabolic pathway design based on the uniform similarity of substrate-product pairs and conditional search.PloS one · 2022Article
- Finding branched pathways in metabolic network via atom group tracking.PLoS computational biology · 2021Article
- Seeing the forest for the trees: Retrieving plant secondary biochemical pathways from metabolome networks.Computational and structural biotechnology journal · 2021Review
- Towards scaling elementary flux mode computation.Briefings in bioinformatics · 2020Article
- Improving the organization and interactivity of metabolic pathfinding with precomputed pathways.BMC bioinformatics · 2020Article
- RetSynth: determining all optimal and sub-optimal synthetic pathways that facilitate synthesis of target compounds in chassis organisms.BMC bioinformatics · 2019Article
- Establishing synthesis pathway-host compatibility via enzyme solubility.Biotechnology and bioengineering · 2019Article
- Enumerating all possible biosynthetic pathways in metabolic networks.Scientific reports · 2018Article
- Pathway design using de novo steps through uncharted biochemical spaces.Nature communications · 2018Article
- A review of computational tools for design and reconstruction of metabolic pathways.Synthetic and systems biotechnology · 2017Review
- A review of parameters and heuristics for guiding metabolic pathfinding.Journal of cheminformatics · 2017Review
- Network design and analysis for multi-enzyme biocatalysis.BMC bioinformatics · 2017Article
- Article
- Systems Metabolic Engineering of Escherichia coli.EcoSal Plus · 2016Review
- MapMaker and PathTracer for tracking carbon in genome-scale metabolic models.Biotechnology journal · 2016Article
- Designing overall stoichiometric conversions and intervening metabolic reactions.Scientific reports · 2015Article
- Pathway and network approaches for identification of cancer signature markers from omics data.Journal of Cancer · 2015Review
- MetRxn: a knowledgebase of metabolites and reactions spanning metabolic models and databases.BMC bioinformatics · 2012Article
- CMPF: class-switching minimized pathfinding in metabolic networks.BMC bioinformatics · 2012Article
Corrections and comments
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Authors and funding
2 authors.
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Abstract
unlabelledWe present MetaRoute, an efficient search algorithm based on atom mapping rules and path weighting schemes that returns relevant or textbook-like routes between a source and a product metabolite within seconds for genome-scale networks. Its speed allows the algorithm to be used interactively through a web interface to visualize relevant routes and local networks for one or multiple organisms based on data from KEGG. AVAILABILITY: http://www-bs.informatik.uni-tuebingen.de/Services/MetaRoute. SUPPLEMENTARY INFORMATION: Supplementary details are available at http://www-bs.informatik.uni-tuebingen.de/Services/MetaRoute.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.