Contents

  1. Visualization of Organism-Scale Metabolic Networks

  2. Please take the BioCyc online survey


1. Visualization of Organism-Scale Metabolic Networks

One of the most popular parts of Pathway Tools is the Cellular Overview tool for visualizing organism-scale metabolic networks. This recent publication from SRI's Bioinformatics Research Group surveys the development of this tool as it has matured along multiple dimensions:

  • From manual layout of the diagram to automatic layout

  • From a single organism to 18,000 organsisms

  • From unicellular organisms to multi-cellular organisms, pan-genomes, and organism communities

  • From slower tiled zooming to real-time zooming

  • Evolution of the diagram to become an interpretation device for transcriptomics and metabolomics data

"Pathway Tools Visualization of Organism-Scale Metabolic Networks"
Metabolites 2021, 11, 64. https://doi.org/10.3390/metabo11020064

2. BioCyc Survey

Please take a few minutes to answer a quick survey regarding your BioCyc experience (13 questions): https://forms.gle/juXAwJzmoAbX1k3x5.