Anamnesis
- 2 Devlogs
- 5 Total hours
A computational journey through deep evolutionary time, reconstructing the molecular past to uncover how life changes, adapts, and sometimes breaks.
Anamnesis: Phase-1 (The Beginning)
As the title suggests, I’m done with phase 0, aka some prep and basic backbone of the project.
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Tho I tried adding a graph using matplotlib, but it looked quite bland n didn’t serve any useful purpose… so I’ve kept the UI for the end ( at least for now ), and removed the existing graph…
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So, from now on, I shall be working on phase-1, which includes:
- Protein sequence collection
- Phylogenetic reconstruction
- Ancestral sequence reconstruction
- Evolutionary uncertainty
- Ancient protein candidates
And that, ladies and gentlemen, is the real beginning of Anamnesis…
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P.S. Till now development was slower as I needed to focus on my studies and stuff, but from now on, things should be swifter…. :)
Anamnesis: The Beginning
This project shall serve as my endgame.
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This idea of Anamnesis is simple:
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Reconstruct ancestral proteins from hundreds of millions of years ago, reconstruct their structures, simulate their molecular dynamics, and trace how mutations transformed their stability, flexibility, and function.
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Then extend the evolutionary framework to cancer: model how mutations reshape cellular dynamics and search for previously overlooked dynamical states that may make cancer cells unusually vulnerable.
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And as you can tell by the time I’ve logged this, I’ve already started working on the basics, that is, I’m still a newbie at biology, and need to learn quite a few things while building it.
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Either way, the program can now read the protein, its data and its individual amino acids while knowing which letter corresponds to which amino acid…
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A weird incident, that is, I literally wrote my own parser start to end, to read the data related to protein,, only to then realize I could’ve used Biopython instead…. (genius Ik 🥀)
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But yeah,, I’ll try to develop the project as fast as I can while learning the biology underneath it (a rare moment in life where you genuinely feel thankful for naturally being a really quick learner).
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Soo… that’s it for today?
Have a great evening..! 🕯️
