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omagebright/README.md

Oxford UNICAMP EMBRAPA


ORCID Google Scholar Academic Page Profile Views

👨‍🔬 About Me

I am a Visiting Researcher at the University of Oxford, Department of Computer Science (host: Prof. Peter Minary, Wolfson Building), a Post-doctoral Research Scientist at UNICAMP – University of Campinas, Instituto de Química, Brazil (supervisor: Prof. Ljubica Tasic), and a Research Fellow at EMBRAPA Digital Agriculture, Brazil (supervisor: Prof. Goran Neshich).

My research sits at the intersection of computational biology, machine learning, and structural bioinformatics — with primary focus on CRISPR-Cas9 off-target prediction, protein allosteric site identification, and ML-driven drug discovery.

📄 38 peer-reviewed publications · 942 citations · h-index 13 · i10-index 13 🌐 Academic page: users.ox.ac.uk/~coml1155

🔬 Research Themes

🧬  CRISPR-Cas9 Off-Target Prediction          ████████████████████  88%
🏗️  Structural Bioinformatics · STINGAllo       █████████████████████ 93%
🕸️  Graph Neural Networks for Molecules         ████████████████████  85%
💊  Computational Drug Discovery                █████████████████████ 90%
📊  Metabolomics & NMR Spectroscopy             ████████████████████  87%
🌍  Global Burden of Disease Studies            ████████████████████  82%

🛠️ Technical Stack

Machine Learning & AI

PyTorch TensorFlow scikit-learn Jupyter

Languages & Bioinformatics

Python R Linux MATLAB

Infrastructure & Tools

Docker Git HPC/SLURM LaTeX

📚 Selected Publications

Year Title Journal Citations
2025 Protein allosteric site identification using ML and STING nanoenvironment descriptors Comput. & Struct. Biotechnol. J. 8
2025 STINGAllo: web server for high-throughput allosteric site prediction Briefings in Bioinformatics 3
2025 Resveratrol mechanisms in Drosophila Parkinson's model Scientific Reports 6
2025 Mercury-selenium interactions via metabolomics in Amazonian communities Environmental Pollution 3
2023 Diphenyl Diselenide & SARS-CoV-2: in silico inhibition of Mpro & PLpro J. Chem. Inf. Model. (ACS) 26
2023 Plasma lipid metabolites as obesity biomarkers Scientific Reports 16
2021 Ebselen in silico interactions with SARS-CoV-2 Mpro & PLpro Molecular 46
2021 Mechanistic insight into SARS-CoV-2 inhibition by organoselenides Applied Sciences 25

📖 View all 38 publications on Google Scholar →

🤝 Connect

Academic Page Email LinkedIn ORCID Google Scholar

Pinned Loading

  1. enlighten enlighten Public

    Forked from marcvanderkamp/enlighten

    Protocols and tools to run (automated) atomistic simulations of enzyme-ligand systems

    Shell

  2. qmmm-workshop qmmm-workshop Public

    Forked from CCPBioSim/qmmm-workshop

    Workshop teaching QMMM using Amber

    Jupyter Notebook

  3. string-amber string-amber Public

    Forked from kzinovjev/string-amber

    Adaptive string method implementation in sander (AmberTools19+)

    Fortran

  4. public-apis public-apis Public

    Forked from public-apis/public-apis

    A collective list of free APIs

    Python

  5. alphafold alphafold Public

    Forked from google-deepmind/alphafold

    Open source code for AlphaFold.

    Python