-
Notifications
You must be signed in to change notification settings - Fork 44
New issue
Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.
By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.
Already on GitHub? Sign in to your account
Yeast-GEM visualization? #367
Comments
To my knowledge, there is no active development around Yeast-GEM visualization. DD-DeCaF is no longer functional, MetabolicAtlas has some yeast maps, but these are mostly suited for overlaying omics data, it it not well-suited for flux data. The maps are available here as SVG, and it appears like they are based on the SBGN/SBML files here, but I'm uncertain if this is correct. There is also this outdated effort. Please feel free to reach out for further discussions, as a good visualization map would be extremely valuable. |
Hi, edkerk, I am just working on building up a pathways map based on yeast-gem 9. There is one paper published by Jen Nielsen visualized yeast-gem 8.3.4 with celldesigner. https://analyticalsciencejournals.onlinelibrary.wiley.com/doi/full/10.1002/bit.27943. Based on this, I am currently working on naming those reactions and metabolites not showing up in kigg database and try to build up separete pathway maps in escher for yeast-GEM9.0.1. |
Hi, I am wondering if anyone has already created a visualization map with tools like Escher or DD-DeCaF. I am currently interested in doing so on yeast-GEM 9, it would be better if I can start on someone's legacy work
The text was updated successfully, but these errors were encountered: