nullbyte808
Hey this can be good for privacy in a way at least. Your traffic can be from any of your neighbors. I wonder if you can sniff packets from other households?
Amazing. RIP.
Never Before Seen Spider Looks Like a Leaf
Fragment and Barcode Design
Sidewinder fragments are composed of DNA oligos. The design process relies on calculating the length of a construct and a barcode to determine the maximum bases of coding information.
Toeholds: Standardized to 10 bases. Ligation is effective at ≥±6 bases from the Sidewinder helix; 10 bases allow sufficient distance for ligase docking.
Barcodes: Designed to be compatible with toeholds using a "guess-check" method or NUPACK Python scripts. Barcodes are screened for secondary structure and crosstalk at 50°C.
Ligase Selection: Taq ligase and HiFi Taq ligase were selected for their stability at high temperatures and efficiency at the 3-way junction (3WJ).
Oligo Preparation and Annealing
Sourcing: Oligos were synthesized by Millipore-Sigma. Standard desalt purification was generally sufficient, though PAGE purification was used for specific characterization steps.
Heteroduplex Formation: Coding oligos (phosphorylated via T4PNK) and barcode oligos are annealed in a PCR tube. The mixture is heated to 98°C and ramped down to 25°C to form stable heteroduplexes.
Purification: Annealed heteroduplexes are purified via PAGE gel extraction.
Assembly Protocols
The authors describe two primary assembly conditions using HiFi Taq ligase with fragments at equimolar concentrations (~1 nM):
Cycling Protocol: Cycles between 85°C (1 min) and 50°C (2 min) for 100 cycles, followed by a 1-hour hold at 50°C.
Ramp Protocol (e.g., h-fibroin): Heats to 85°C, slowly cools to 50°C, and incubates overnight at 50°C.
These methods were benchmarked against conventional 2-way junction (2WJ) and Gibson assembly methods.