DNA Nanostructures

14th of September - William Shih (Wyss Institute) Recordings

caDNAno and linux users:

Build flattened Rothemund rectangle in caDNAno; use square lattice (output: json file)
- Color all staple strands light gray
- https://www.dropbox.com/s/w2c6dld35ma2a79/160914_flat_rectangle.pdf?dl=0
Generate staple strand sequences in caDNAno (output: list of sequences in tab delimited text file)
Generate at least three examples of pixel art with six colors (output: svg files)
- Use color palette of red, orange, yellow, green, blue, purple; for background, use light gray
- https://www.dropbox.com/s/bup1p46rxfns4aw/160914_pixel_map.svg?dl=0
- https://www.dropbox.com/s/gtqdndfqh803fcx/160914_pixel_art_example.png?dl=0
Generate at least three examples of pixel art with only one color (output: svg files)
- Use black for on pixel, light gray for off pixel
Generate ASCII file representation of the images (output: text file)
- https://www.dropbox.com/s/xm4nwnrrtk1vd68/150914_rectangle_pattern_empty.txt?dl=0
- https://www.dropbox.com/s/gdpihkrt2qp24op/150914_rectangle_pattern_example.txt?dl=0

Extra-credit (not required): write a script that converts from the svg file representation above to the ASCII representation below
https://www.dropbox.com/s/a8872vj86r2oqox/150830_extra_credit_files.zip?dl=0
Generate caDNAno-format json file encoding 24 strand flat rectangle from a Python script
Write a Python script that outputs the sequences in 96-well format according to pattern described by
https://www.dropbox.com/s/8wce2okbz08pg05/150830_empty_pipetting_rectangle.txt?dl=0
These are the pixels with value 0
Write a Python script that outputs the sequences with TTATACATCTAG appended to the end of each
These are the pixels with value P1