Homework

Growing Serratia marcescens and Bacillus sp. pigments for bio-art. Mechanotransduction experiments. Governance framework for engineered organisms in gallery settings.

Codon-optimising VioC from C. violaceum. Circadian antimicrobial system. Magainin peptide under RpaA promoter. Twist synthesis order prep.

Draft final project directions. Weighing Twist costs, remote lab availability, and UK-based ordering constraints to identify the most viable pathway.

GABARAPL2 analysis in PyMol (PDB 7LK3). ESM2 mutational scan, t-SNE latent space, ESMFold, ProteinMPNN inverse folding. Bacteriophage engineering brainstorm.

SOD1-A4V binder peptide design. PepMLM generation, AlphaFold3 evaluation, PeptiVerse property scoring, moPPIt optimisation. L-protein mutant plan for MS2 phage lysis.

DNA assembly and PCR components. Phusion High-Fidelity Master Mix, primer annealing, amilCP chromophore mutagenesis, and genetic circuit design fundamentals.

IANNs vs Boolean circuits. KaiClock + Durin parallel AND gate run at Weiss Lab. Fungal materials, mycelial pigment lightfastness. Twist DNA order review.

Cell-free protein synthesis advantages. Lyme disease biosensor synthetic cell design. Freeze-dried silk protein self-repair in soft robotics. BioBits space proposal for MaSp1 microgravity assembly.

eGFP molecular weight from amino acid sequence. Adjacent charge state mass calculation. Tryptic digest peptide mapping. Native vs denatured mass spectrometry analysis.

1,536 pixel collaborative canvas. Cell-free reagent analysis. mTurquoise2 nicotinamide hypothesis for chromophore maturation. Global cell-free master mix design.