Runcell posts tagged “biopython”
Dam/Dcm Methylation Tutorial: Which Restriction Sites Are Blocked in pUC19, pBR322, pACYC184 and Lambda
A site-by-site table of which restriction sites Dam and Dcm methylation block in four standard DNAs, for the 114 enzymes in Runcell's restriction site finder, using REBASE sensitivity data. Covers the enzymes that are on the 'blocked' list but still cut your vector, how often a cloning junction creates a new blocked site, and a script to check your own plasmid.Read More →
A280 Protein Concentration Tutorial: ε280 for 11 Proteins, and Why A280 ≠ mg/mL
Computed ε280, molecular weight and Abs 0.1% for 11 common lab proteins from UniProt mature chains. Shows how far the '1 A280 = 1 mg/mL' shortcut is off (0.17× to 2.65×), what pasting the precursor sequence costs, and why nucleic-acid contamination skews proteins with a low Abs 0.1% the most.Read More →
DNA Molecular Weight in Python: A Runnable ng/µL → nM Workflow
Why ng/µL → nM calculators disagree by 7%, measured on real NCBI sequences with Biopython. Covers free acid vs sodium salt, the 650/660/330 rules of thumb, 5' phosphates, and a full pUC19 digest-to-ligation workflow.Read More →