Organic Chemistry if it was Fun
I don't know much about organic chemistry, but I should. I wish I didn't have to have taken Organic Chemistry in college to appreciate its vastness and beauty (like linear algebra, it has a disempowering syllabus divorced from its context - Linear Algebra as Spreadsheet). A Mathematician's Lament type problem (cf https://jsomers.net/i-should-have-loved-biology/).
Surely there's a need for an environment for, say, drawing skeletal diagrams, but more dynamic and authorial (IDE/Photoshop/DAW for X). Where you can combine elements from a palette until you recapitulate ideas like those NileRed conveys so elegantly in his absurd transmutation videos?
Synthesis pathways unfolding before you, etc
I was hopeful that Crash Course's OChem course would have enough eye-catching motion graphics to keep me awake, but alas, at many points it felt like a powerpoint with the same flaws in the medium as any other video.
Potential benchmark: OChem problem sets, can you do them in one IDE environment? Where the essence of the reasoning is laid bare, and the annoying mechanical bits are abstracted out?
These process diagrams seem important
(https://www.mdpi.com/1420-3049/18/11/14268/htm)
extreme version: http://biochemical-pathways.com/#/map/1
Links:
- https://molview.org
- https://rxn.res.ibm.com/
- https://iktos.ai/spaya/
- https://www.rcsb.org/ligand/4AZ
- https://en.wikipedia.org/wiki/Molecule_editor
- https://en.wikipedia.org/wiki/BALL
- mol files
- https://chemaxon.com/products/marvin-js
- http://www.kingdraw.cn/en/index.html
- https://apps.apple.com/us/app/backside-attack/id1278956096
- https://apps.apple.com/us/app/mechanisms-organic-chemistry/id1157056029
- https://www.amazon.com/Covalence-A-Molecule-Building-Game/dp/B01K3D4HL6/ref=asc_df_B01K3D4HL6/
- https://www.reactgame.com/
- https://perkinelmerinformatics.com/products/research/chemdraw
Help me understand the Citric Acid Cycle!
Biochemistry… in 3d! https://youtu.be/or5qN0SHJC4
https://www.instagram.com/p/Cbz5330N8wi/?utm_medium=copy_link
https://apps.apple.com/us/app/mechanisms-organic-chemistry/id1157056029
https://apps.apple.com/us/app/molecule/id797331776
https://commons.wikimedia.org/wiki/File:Aristolochic_acid_biosynthesis.png
https://www.chemistrysteps.com/organic-synthesis-practice-puzzles/
https://en.wikipedia.org/wiki/Gabriel_synthesis
Symmetry groups! https://www.chemtube3d.com/sym-cyclohexaneboat/
She explains by playing with a toy https://www.youtube.com/watch?v=UtM-F2zlgmw
https://doc.gdb.tools/smilesDrawer/
Hexagon Research
Comments on https://www.reddit.com/r/specializedtools/comments/7z5n34/hexagonal_paper_for_drawing_organic_compounds/ :
https://store.steampowered.com/app/558990/Opus_Magnum/
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https://www.masterorganicchemistry.com/
https://ocw.mit.edu/courses/5-12-organic-chemistry-i-spring-2003/pages/syllabus/
https://www.nytimes.com/2022/10/03/us/nyu-organic-chemistry-petition.html
https://twitter.com/atinygreencell/status/1622044471616471042?s=46&t=PsDMDFGKzjL5PbYr3-QG4w
Related: Figma for Science, Why are proof assistants so unfriendly?, Domain-Learning with Computational Microworlds
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