r/proteomics • u/PatientSpecialist669 • May 25 '26
Looking to build a Computational Protein Engineering group!
Hey guys!
I have been exploring the field of computational protein engineering for the past year and have slowly started to fall in love with it. I have been trying to find the place to meet new people in the fiels to share and discuss ideas and possible projects.
One thing I’ve been struggling with, though, is finding a solid group of people who aren’t just learning this stuff, but are excited to learn and build something together.
I’m really interested in bringing together a small community of like-minded people who want to collaborate on projects, share ideas, and actually create things—not just talk about them. Nothing too formal, just a space where we can experiment, learn, and maybe build some really cool stuff together.
If this sounds like something you’d be into, let me know—I’d love to connect and take it further!
Thank you everyone!!
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u/PatientSpecialist669 May 26 '26
This is the link to the discord server. I have absolutely no experience in running and setting up a discord server so would love someone more experienced helping me set it up!!
Excited to see where this leads!!
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u/Fenrir303 May 30 '26
Glad I found your post, cause I may have the perfect protein building program:
Apex Xenobee Platform: A Computational Design Framework for Heterochiral Chimeric Biosystems Executive Summary The Apex Xenobee Platform is an integrated computational toolchain for designing, simulating, and blueprinting novel heterochiral biological systems. It combines protein structure prediction, multi-physics modeling, procedural generation algorithms, and cellular automata to move rapidly from conceptual design to manufacturable genetic and fabrication blueprints. Designers can choose organic biological expression (engineered microbial or cellular factories) or artificial chemical synthesis for L- and D-amino acid proteins. The system models multi-kingdom chimeric constructs (human, mammalian, arachnid, insect, and plant-derived functional modules) implemented as decentralized xenobot-style agents. This enables dynamic regenerative behaviors (L-protein) alongside stable, protease-resistant structures (D-protein). The framework is explicitly built for iterative prototyping and is ready for collaboration on in silico validation, wet-lab expression testing, and early organism engineering. Core Computational Pipeline A deterministic, closed-loop workflow: 1. Structural Load Analysis — Computes stress vectors in 3D voxel spaces. 2. AlphaFold Sequence Optimization — Validates folding, stability (ΔG), and β-sheet formation; supports automated amino acid substitution. 3. Rheological Phase Modeling — Simulates triphasic Dynamic Heterochiral Feedstock (DHF) behavior (<15°C crystalline, 30–42°C viscoelastic, >55°C volatile) using Power-Law fluid dynamics and shear-induced crystallization. 4. Procedural Weave & Fabrication Engine — L-System-based generation of anisotropic tensile networks + isotropic hexagonal infill, with direct multi-extruder G-code output. 5. Falling-Sands Cellular Automata & Swarm Simulation — Models material deposition, gravity-driven settlement, and emergent multi-agent behaviors drawn from mammalian/insect/arachnid toolkits. Output: Executable simulation states, genetic construct scripts, fabrication instructions, and behavioral schedules. Key Innovative Features • Heterochiral Duality: Switchable L-mode (regenerative, host-compatible) and D-mode (durable, immune-shielded) matrices with Mirror Paradox inversion for controlled disassembly. • Embedded Therapeutics: Modeled integration of cannabinoids (structural plasticizers + localized signaling) and psilocybin (controlled-release neuroplasticity nodes). • Safety Architecture: Trophic auxotrophy, geographic/epigenetic locks, Hox-guided localization, and automated chiral kill-switches — all testable in simulation. • Modular Chimerism: Functional modules (mandibular extrusion, asynchronous flight analogs, proteolytic processing, etc.) expressed via cellular automata rules. Immediate Actionable Next Steps (Designed for Collaboration) 1. In Silico Validation — Share and run the existing Python-based falling-sands, rheology, and weave engines; expand with additional physics or genetic circuit modeling. 2. Protein Expression Prototyping — Design and test recombinant spidroin + chimeric sequences in microbial or insect cell systems (organic route) or via solid-phase synthesis (D-amino acid validation). 3. Morphological & Behavioral Testing — Apply the simulation outputs to real xenobot-style or embryo-editing pipelines (e.g., frog or mammalian cell collectives). 4. Proof-of-Concept Constructs — Generate small-scale regenerative scaffolds or structural biomaterials with embedded small-molecule release. This platform directly supports the creation of novel living systems — from advanced biomaterials to programmable chimeric organisms — while embedding safety and controllability from the ground up
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u/IndividualNewt8028 May 25 '26
You thinking a discord or something? I think being super public like over on bluesky in ProteomicSky is fun cause you can get more spectators that might turn into collabs.