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mrunalimanj / modelingSystemsinBiology

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DNA origami + nucleic acid nanotechnology #9

Open mrunalimanj opened 3 years ago

mrunalimanj commented 3 years ago

From Shawn Douglas' site:

Check out some other projects from the community:

MrDNA from the Aksimentiev Lab at UIUC I think this above one has a Python implementation which might make it more conducive to working in a notebook! http://www.ks.uiuc.edu/Training/Workshop/Urbana2018c/tutorials/multi-resolution-dna-nanotechnology.pdf may need to include some starter files that were made in cadnano first, and write up a script to show how it was produced. also:

  • scadnano from the Doty Lab at UC Davis
  • several tools from the Bathe Lab at MIT
mrunalimanj commented 3 years ago

h/t Brian Beliveau (well, actually Robin Aguilar, Conor Camplisson): nucleic acid nanotech: resources from Niles Pierce's lab https://piercelab-caltech.github.io/nupack-docs/ --> in python! sweet 🐍

review of performance enhancements here: https://pubs.acs.org/doi/10.1021/acssynbio.9b00523

mrunalimanj commented 3 years ago

https://www.pnas.org/content/115/10/E2183, https://github.com/beliveau-lab/OligoMiner is one application?