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BioRetroSynth

Our group is interested in synthetic biology and systems metabolic engineering in whole-cell and cell-free systems.

Bio-RetroSynth

Bio-RetroSynth group

Our group is interested in synthetic biology in whole-cell and cell-free systems. We develop computational and wet lab protocols to search, design, and engineer biological pathways and networks. Other activities include structure-activity, sequence-function relationships, retrosynthesis, and the design of experiments using active and reinforcement machine learning methods. The applications of our work include synthetic metabolic pathways and genetic circuits engineering for bioproduction, biosensing, and biocomputing.

Popular repositories Loading

  1. RetroPathRL RetroPathRL Public

    Reinforcement Learning based bioretrosynthesis tool

    Python 60 20

  2. rp2paths rp2paths Public

    RetroPath2.0 to pathways

    Python 18 10

  3. amn_release amn_release Public

    Jupyter Notebook 17 7

  4. active_learning_cell_free active_learning_cell_free Public

    Scripts to perform active learning as described in the referenced article.

    Jupyter Notebook 13 12

  5. retropath2-wrapper retropath2-wrapper Public

    Python wrapper for Retropath2.0 Knime workflow

    JavaScript 10 1

  6. neo4jsbml neo4jsbml Public

    Bridge the gap between SBML data and Neo4j

    Python 8

Repositories

Showing 10 of 101 repositories
  • RRParser Public

    Reaction rules parser

    brsynth/RRParser's past year of commit activity
    Python 2 MIT 0 0 1 Updated Oct 12, 2026
  • galaxytools Public

    Galaxy wrappers of SynBioCAD tools suite

    brsynth/galaxytools's past year of commit activity
    HTML 2 MIT 0 0 3 Updated Oct 12, 2026
  • morganbiopilot Public

    An agentic retrobiosynthesis framework

    brsynth/morganbiopilot's past year of commit activity
    Python 0 0 0 0 Updated Oct 8, 2026
  • morganrxn Public

    A framework for modeling reactions in molecular fingerprint space

    brsynth/morganrxn's past year of commit activity
    Python 0 0 0 0 Updated Oct 4, 2026
  • chemproflow Public

    Assessing substrate transport across cell membranes

    brsynth/chemproflow's past year of commit activity
    Python 0 MIT 0 0 1 Updated Sep 28, 2026
  • BioBot Public
    brsynth/BioBot's past year of commit activity
    HTML 0 MIT 0 0 0 Updated Sep 25, 2026
  • rr_cache Public

    RetroRules Cache

    brsynth/rr_cache's past year of commit activity
    Python 0 MIT 1 0 0 Updated Sep 25, 2026
  • neo4jsbml Public

    Bridge the gap between SBML data and Neo4j

    brsynth/neo4jsbml's past year of commit activity
    Python 8 MIT 0 0 5 Updated Aug 10, 2026
  • mutant-covid Public

    Growth-Based Classification of COVID-19 Using E. coli Metabolic Sensors

    brsynth/mutant-covid's past year of commit activity
    Python 0 0 0 0 Updated Aug 5, 2026
  • bacterial_rc Public

    Living bacterial reservoir computers for information processing and sensing

    brsynth/bacterial_rc's past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Jul 30, 2026