Biomod/2011/Harvard/HarvarDNAnos:caDNAnoFiles
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caDNAno File Repository
Dear Members of the DNA Origami Community: Please feel free to upload your .JSON files here!
Structures from the literature
Sphere
- JSON file: Media:Sphere match.json
- Literature reference: [recent Science paper by Han et al.]
- Scaffold sequence propagation instructions: add Media:M13mp18_new.txt as a custom sequence
- See this excel file for a way to map between caDNAno coordinates, Han's coordinate system, theta/phi position, and the direction the staple helix is pointing
Tall Rectangular Origami
- JSON file: Media:rothemund-tallrect.json
- Literature reference: http://www.nature.com/nature/journal/v440/n7082/abs/nature04586.html
Rectangular Origami
- JSON file: Media:rothemund-rect.json
- Literature reference: http://www.nature.com/nature/journal/v440/n7082/abs/nature04586.html
Long Rectangular Origami
- JSON file: Media:jungmann-lro.json
- Literature reference: http://pubs.acs.org/doi/abs/10.1021/nl103427w
Structures from Harvard BioMod 2011
- Barrel: caDNAnoSQ file
- Lid: caDNAnoSQ file
- Staples: Excel file
- Sphere: caDNAnoSQ file
- Staples: Excel file
Scaffold Permutation Analysis
For reverse engineering of origami without caDNAno specifications into JSON format
- This Python script can be used to determine if reverse-engineered staples match those provided by the literature reference:
- Guidelines:
- You'll need to match the file name convention and directory structure in the .zip file
SphereCAD
- See here
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