Compartment and Hub Definitions Tune Metabolic Networks for Metabolomic Interpretations
Creators
- 1. University of California San Diego
- 2. University of Utah
Description
This archive contains data for a report by the same title.
Data relate to software projects MetaboNet and DyMetaboNet.
MetaboNet: https://github.com/tcameronwaller/metabonet
DyMetaboNet: https://github.com/tcameronwaller/dymetabonet
File descriptions
dymetabonet_2019-08-29.mp4 ... raw screen capture video of DyMetaboNet
dock_metabonet_2019-08-18.zip ... complete MetaboNet export
model_* ... curation of human metabolic model by MetaboNet
model_dymetabonet.zip ... format for DyMetaboNet
model_compartments* ... compartments
model_processes* ... processes
model_reactions* ... reactions
model_metabolites* ... metabolites
measurement_* ... curation of metabolomic measurements by MetaboNet
measurement_study_*_report.tsv ... summary of match measurements to metabolites
measurement_study_*.tsv ... metabolites' fold changes and probabilities between groups
measurement_study_*_metaboanalyst.txt ... format for MetaboAnalyst
measurement_study_*_metaboanalyst_pair.txt ... format for MetaboAnalyst with sample pairs
network_* ... multiple definitions of metabolic networks
network_compartments-true_hubs-true.zip ... compartmental network with hubs
network_compartments-true_hubs-false.zip ... compartmental network without hubs
network_compartments-false_hubs-true.zip ... noncompartmental network with hubs
network_compartments-false_hubs-false.zip ... noncompartmental network without hubs
network_compartments-*_hubs_*/network_cytoscape.json ... format for Cytoscape
network_compartments-*_hubs_*/network_networkx.pickle ... format for NetworkX
network_compartments-*_hubs_*/nodes_reactions.pickle ... network's nodes for reactions
network_compartments-*_hubs_*/nodes_metabolites.pickle ... network's nodes for metabolites
network_compartments-*_hubs_*/links.pickle ... network's links
network_compartments-*_hubs_*/analysis/nodes_reactions.tsv ... nodes' metrics relative to reactions
network_compartments-*_hubs_*/analysis/nodes_metabolites.tsv ... nodes' metrics relative to metabolites
network_compartments-*_hubs_*/analysis/network_reactions.tsv ... network's metrics relative to reactions
network_compartments-*_hubs_*/analysis/network_metabolites.tsv ... network's metrics relative to metabolites
network_compartments-*_hubs_*/measurement/metabolites.tsv ... measurements on nodes for metabolites
Files
dock_metabonet_2019-08-18.zip
Files
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