IGEM:Harvard/2006/DNA nanostructures/Notebook/2006-11-14

Goals This Week

• Fold design 5. Will fold without lids - no aptamers, inside aptamers, outside aptamers. Aptamers here simply refer the the dna ligands we plan to cut with restriction enzymes.
• Fold design 5 lids
• Fold with biotin for Tiff's protocol
• PEG fractionation
• Prepare to repeat Tiff's experiments
• GUI development

Mixed PreWorking Stocks

c5.0.1 - core barrel oligos

• box_v5_A
• box_v5_B rows A-F
• box_v5_B row G (1-4)

Total = 172

c5.0.4 - barrel oligos at outside aptamers (without aptamers)

• box_v5_E row A (5-9)

Total = 5

c5.0.5 - barrel oligos at inside aptamers (without aptamers)

• box_v5_E row A (10-12), row B (1-2)

Total = 5

c5.0.4L - barrel oligos at outside aptamers (with ligand)

• box_v5_F row F (1-10)

Total = 10

c5.0.5L - barrel oligos at inside aptamers (with ligand)

• box_v5_F row F (11-12), row G (1 - 10)

Total = 12

c5.0.6 - barrel oligos at latches (no latches)

• box_v5_E row B (3-5)

Total = 3

c5.0.7 - barrel oligos at latches (no latches)

• box_v5_E row B (6-8)

Mixed Working Stocks

c5.0.A - barrel, lidless

• c5.0.1 - 172 ul
• c5.0.4 - 5 ul
• c5.0.5 - 5 ul
• c5.0.6 - 3 ul
• c5.0.7 - 3 ul
• dH20 - 12 ul

c5.0.C - barrel, lidless, inside ligand

• c5.0.1 - 172 ul
• c5.0.4 - 5 ul
• c5.0.5L - 12 ul
• c5.0.6 - 3 ul
• c5.0.7 - 3 ul
• dH20 - 5 ul

c5.0.D - barrel, lidless, outside ligand

• c5.0.1 - 172 ul
• c5.0.4L - 12 ul
• c5.0.5 - 5 ul
• c5.0.6 - 3 ul
• c5.0.7 - 3 ul
• dH20 - 5 ul