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@HassounLab Hassoun Lab: Computational Systems + Synthetic Biology

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    21 repositories

    • BGCat

      Public
      Structural Classification of Biosynthetic Gene Cluster Products
      Python
      •
      MIT License
      •0•0•1•0•Updated Dec 3, 2025Dec 3, 2025

    • GIF

      Public
      GIF: Guiding LLMs through structured prompting and iterative refinement for molecular fragmentation
      Python
      •0•1•0•0•Updated Dec 2, 2025Dec 2, 2025

    • JESTR1

      Public
      Joint Embedding Space Technique for Ranking Candidate Molecules for the Annotation of Untargeted Metabolomics Data
      Python
      •
      MIT License
      •3•12•4•0•Updated Nov 21, 2025Nov 21, 2025

    • MVP

      Public
      Multi-View Projection for metabolite annotation
      Python
      •0•1•0•0•Updated Oct 24, 2025Oct 24, 2025

    • MADGEN

      Public
      MASS-SPEC ATTENDS TO DE NOVO MOLECULAR GENERATION
      Python
      •
      MIT License
      •2•20•0•1•Updated Sep 23, 2025Sep 23, 2025

    • OMG

      Public
      Optimized Molecular Generation (OMG) for de novo mass spectrum annotation
      Python
      •0•3•0•0•Updated Aug 7, 2025Aug 7, 2025

    • MDM

      Public
      Microbial Drug Metabolism (MDM) prediction
      Jupyter Notebook
      •0•0•0•0•Updated Feb 21, 2025Feb 21, 2025

    • PubChem-LLM-Retrieval

      Public
      This Github repository holds the supporting documents for the paper "Evaluation of search-enabled Pre-trained Large Language Models on retrieval tasks for the P…
      0•0•0•0•Updated Oct 21, 2024Oct 21, 2024

    • BAM

      Public
      Biotransformation-based annotation method
      Python
      •0•8•0•0•Updated Sep 24, 2024Sep 24, 2024

    • ESP

      Public
      ESP model
      machine-learningmass-spectrometry
      machine-learningmass-spectrometry
      Python
      •
      MIT License
      •0•3•1•0•Updated May 3, 2024May 3, 2024

    • Boost-RS

      Public
      Boosted Embeddings for Recommender Systems and its Application to Enzyme-Substrate Interaction Prediction
      Python
      •
      MIT License
      •2•6•0•0•Updated Mar 6, 2024Mar 6, 2024

    • PROXIMAL2

      Public
      PROXIMAL2 algorithm
      Python
      •1•5•0•0•Updated Oct 9, 2023Oct 9, 2023

    • EPP

      Public
      Code for the paper "Enzyme Promiscuity Prediction using hierarchy-informed multi-label classification"
      Python
      •3•13•0•0•Updated Aug 7, 2023Aug 7, 2023

    • ASAP-SML

      Public
      ASAP-SML: An Antibody Sequence Analysis Pipeline Using Statistical Testing and Machine Learning
      Jupyter Notebook
      •
      MIT License
      •2•11•0•2•Updated Jul 6, 2023Jul 6, 2023

    • GNN-SOM

      Public
      Site-of-Metabolsim prediction using Graph Neural Networks.
      Jupyter Notebook
      •
      MIT License
      •3•15•0•0•Updated Mar 30, 2023Mar 30, 2023

    • PER_BRENDA

      Public
      Python
      •
      MIT License
      •0•0•1•0•Updated Feb 8, 2023Feb 8, 2023

    • CSI

      Public
      Python
      •
      MIT License
      •1•1•1•0•Updated Dec 12, 2022Dec 12, 2022

    • MDFlow

      Public
      Python
      •0•0•0•0•Updated Dec 30, 2020Dec 30, 2020

    • ELP

      Public
      Enzymatic Link Prediction
      machine-learningbioinformaticsmetabolic-network
      machine-learningbioinformaticsmetabolic-networkmetabolic-reconstructionmetabolic-engineeringenzyme-function
      Python
      •0•7•0•0•Updated Aug 19, 2020Aug 19, 2020

    • PUMA

      Public
      Pathway Activity Analysis and Metabolite Annotation for Untargeted Metabolomics using Probabilistic Modeling
      Python
      •0•5•0•0•Updated Nov 23, 2019Nov 23, 2019

    • gEFM

      Public
      C++
      •
      Other
      •0•0•0•0•Updated Aug 25, 2018Aug 25, 2018
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