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@ai4protein Venus (启明星)

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    Repositories list

    21 repositories

    • .github

      Public
      Python
      •1•0•0•0•Updated Oct 28, 2026Oct 28, 2026

    • ProDMM

      Public
      Source code of ProDMM. The paper is titled with "Unveiling Protein-DNA Interdependency: Harnessing Unified Multimodal Sequence Modeling, Understanding and Gener…
      Python
      •
      GNU General Public License v3.0
      •1•10•1•0•Updated Oct 12, 2026Oct 12, 2026

    • Venus-MAXWELL

      Public
      Source code of Venus-MAXWELL: Efficient Learning of Protein-Mutation Stability Landscapes using Protein Language Models
      Python
      •
      Other
      •3•31•0•0•Updated Oct 8, 2026Oct 8, 2026

    • ProSST

      Public
      🧬 Advanced hybrid language model for directed protein evolution. (NeurIPS 2024)
      protein-structureproteinlanguage-model
      protein-structureproteinlanguage-modelmutation-predictiondirect-evolution
      Python
      •
      Other
      •20•166•13•0•Updated Sep 29, 2026Sep 29, 2026

    • ProtSSN

      Public
      🧬 Fusion of protein sequence and structural information, using denoising pre-training network for zero-shot protein engineering (eLife 2025).
      protein-structureproteinzero-shot
      protein-structureproteinzero-shotprotein-engineeringgraph-neural-networksdirected-evolutionmutant-prediction
      Python
      •
      Other
      •10•97•6•0•Updated Sep 29, 2026Sep 29, 2026

    • VenusREM

      Public
      🧬 Augmenting zero-shot mutant prediction by retrieval-based logits fusion. (ISMB/ECCB 2025)
      retrievalprotein-structureprotein
      retrievalprotein-structureproteinlanguage-modelhomology-searchprotein-engineering
      Python
      •
      Other
      •14•148•16•1•Updated Sep 29, 2026Sep 29, 2026

    • VenusREM-Harness

      Public
      A general harness enhances zero-shot fitness predition for any protein foundation model.
      proteinharnessprotein-design
      proteinharnessprotein-designinverse-foldingprotein-engineeringprotein-language-modeldirected-evolutiontraining-freeprotein-foundation-models
      Python
      •
      Other
      •0•9•0•0•Updated Sep 29, 2026Sep 29, 2026

    • VenusFactory2

      Public
      🏭 AI agent platform with skills for protein engineering, the noob-friendly AI tutorial tool for life science professionals. (ACL Demo2025, arXiv 2026)
      agenttutorialdatabase
      agenttutorialdatabaseskillprotein-scienceproteinlanguage-modelfine-tuningnoob-friendlylife-science
      Python
      •
      Other
      •37•255•10•1•Updated Sep 25, 2026Sep 25, 2026

    • VenusFold

      Public
      VenusFold
      Python
      •
      Other
      •0•16•0•0•Updated Sep 14, 2026Sep 14, 2026

    • ai4protein.github.io

      Public
      Homepage
      HTML
      •0•0•0•0•Updated Sep 2, 2026Sep 2, 2026

    • PET-Flow

      Public
      0•0•0•0•Updated May 30, 2026May 30, 2026

    • VenusX

      Public
      🧬 Large-scale protein functional residue or fragment prediction benchmark. (ICLR 2026)
      deep-learningneural-networkprotein-structure
      deep-learningneural-networkprotein-structureproteinpretrained-modelsgraph-neural-networksprotein-language-model
      Python
      •
      Other
      •1•25•2•0•Updated Apr 10, 2026Apr 10, 2026

    • VenusFSFP

      Public
      VenusFSFP: Few-Shot Protein Fitness Prediction
      Python
      •
      Other
      •13•123•8•0•Updated Nov 18, 2025Nov 18, 2025

    • VenusWSL

      Public
      Python
      •
      Other
      •0•10•0•0•Updated Nov 4, 2025Nov 4, 2025

    • Pro-Prime

      Public
      Jupyter Notebook
      •
      Other
      •13•86•10•0•Updated Aug 26, 2025Aug 26, 2025

    • VenusMine

      Public
      Jupyter Notebook
      •
      Other
      •9•43•0•0•Updated Jun 17, 2025Jun 17, 2025

    • VenusVaccine

      Public
      Python
      •
      Other
      •1•20•1•0•Updated May 16, 2025May 16, 2025

    • VenusPLM

      Public
      Versatile Embedding Network for Understanding protein Sequences
      Python
      •
      Other
      •1•26•1•0•Updated May 16, 2025May 16, 2025

    • CPDiffusion-SS

      Public
      A Novel Approach for Protein Sequence Design Based on Secondary Strucure
      Python
      •1•24•0•0•Updated Mar 7, 2025Mar 7, 2025

    • ProteinPretraining

      Public
      Source code of PETA: Evaluating the Impact of Protein Transfer Learning with Sub-word Tokenization on Downstream Applications.
      Python
      •
      MIT License
      •6•2•0•0•Updated May 30, 2024May 30, 2024

    • nanoT5

      Public
      Fast & Simple repository for pre-training and fine-tuning T5-style models
      Python
      •
      Apache License 2.0
      •77•1•0•0•Updated Jul 4, 2023Jul 4, 2023
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