ReconMap: an interactive visualization of human metabolism

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 R...

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Detalles Bibliográficos
Autores principales: Noronha, Alberto, Daníelsdóttir, Anna Dröfn, Gawron, Piotr, Jóhannsson, Freyr, Jónsdóttir, Soffía, Jarlsson, Sindri, Gunnarsson, Jón Pétur, Brynjólfsson, Sigurður, Schneider, Reinhard, Thiele, Ines, Fleming, Ronan M T
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2017
Materias:
Applications Notes
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5408809/
https://www.ncbi.nlm.nih.gov/pubmed/27993782
http://dx.doi.org/10.1093/bioinformatics/btw667
Descripción
Sumario: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.

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