Modeling systems in biology with computational tools.

A suite of explorations of biological systems... maybe for own exploration, maybe for the QBio REU program. (a work in progress!)

Different (populations of) systems to explore:

Molecules

1. atoms (learning molecular substructures, e.g. SMILES with natural language models?)
2. DNA: origami structures (Shawn Douglas' work)
   Proteins:
3. structural biology/PyRosetta for antibody design/exploration
4. Synthetic biology (TBD)

   Cells

5. scRNA data
6. Stem cell fate engineering

   Tissues:

7. Neuron activity, circuits, neuroscience
8. Imaging of some kind + processing?

   Organs + Human Populations

9. Epidemiology (how are respiratory droplets spread? fluid dynamics)
10. Mental health (how did it fare during the pandemic?)

Contributors:

• Mrunali Manjrekar -- @mrunalimanj
• Isabel Thomas -- @ithomas-8