Bioinformatics · 2016 · 72 citations · 7 references
Life SciencesBioinformaticsVisualizationComputational BiologyInteractive VisualizationMetabolismCellular VisualizationGenome-scale Metabolic ModelingMetabolic Pathway AnalysisMetabolism ModelingOmics Data IntegrationPathway ReconstructionGenome ReconstructionGenome-scale Metabolic Network ReconstructionGenome-scale Model ReconstructionInteractive Scientific VisualizationMetabolic Network ReconstructionMetabolic VisualizationMulti-omics Integration For MetabolismOmics Data Visualization
Motivation: A genome-scale reconstruction of human metabolism, Recon 2, is available but no interface exists to interactively visualize its content integrated with omics data and simulation results. Results: We manually drew a comprehensive map, ReconMap 2.0, that is consistent with the content of Recon 2. We present it within a web interface that allows content query, visualization of custom datasets and submission of feedback to manual curators. Availability and Implementation: ReconMap can be accessed via http://vmh.uni.lu , with network export in a Systems Biology Graphical Notation compliant format released under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License. A Constraint-Based Reconstruction and Analysis (COBRA) Toolbox extension to interact with ReconMap is available via https://github.com/opencobra/cobratoolbox . Contact: ronan.mt.fleming@gmail.com.
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The ChEMBL bioactivity database: an update
A. Patrícia Bento, Anna Gaulton, Anne Hersey et al. · Nucleic Acids Research · 2013 · 1.5K citations · Full text
A community-driven global reconstruction of human metabolism
Ines Thiele, Neil Swainston, Ronan M. T. Fleming et al. · Nature Biotechnology · 2013 · 1.1K citations · Full text