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anweshpandey/README.md
Anwesh Pandey β€” Computational Biophysics, AI/ML & Drug Discovery

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Hello, I'm Anwesh πŸ‘‹

I'm a computational biophysicist working at the intersection of molecular modelling, non-covalent interactions, machine learning, and computer-aided drug design. I hold a Ph.D. in Applied Physics, and my research connects physical insight about biomolecular recognition with computational and data-driven approaches.

I'm currently a Postdoctoral Fellow in the Department of Computational Biology at IIIT Delhi, working on AI/ML for ligand-based drug design, database development, and non-covalent interactions. Previously, I worked at the Hebrew University of Jerusalem on machine learning for enzyme catalytic activity prediction, protein electrostatics, and molecular modelling.

Research theme: combining molecular-level understanding with reproducible computational workflows to make biomedical predictions more useful and interpretable.

What I'm working on

  • 🧬 AI/ML for molecular science β€” protein language models, molecular embeddings, and graph-based learning.
  • πŸ’Š Computer-aided drug design β€” ligand-based modelling, docking, molecular dynamics, and binding interactions.
  • βš›οΈ Non-covalent interactions β€” understanding and quantifying the forces behind molecular recognition.
  • πŸ§ͺ Scientific datasets β€” curation, preprocessing, and database development for catalytic activity and molecular property prediction.
  • πŸ› οΈ Research automation β€” Bash/Python workflows and reproducible computational chemistry and biology pipelines.

Research-to-model workflow

flowchart LR
    A[Scientific question] --> B[Curated molecular data]
    B --> C[Representations and features]
    C --> D[ML model development]
    D --> E[Cross-validation and evaluation]
    E --> F[Physical / chemical interpretation]
    F --> G[Reproducible research workflow]
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Technical toolkit

Machine learning & data science

ProteinNPT MolFormer ChemBERTa DeepChem AutoGluon scikit-learn

Programming & workflows

Python Bash Linux Git

Molecular modelling & simulation

GROMACS AMBER AutoDock ORCA Gaussian PyMOL

Selected research

  • AI/ML for enzyme catalytic activity prediction β€” protein sequence representations, data curation, and model development.
  • DNA–ligand interactions β€” computational modelling of recognition, dynamics, and stability.
  • Non-covalent interactions in molecular systems β€” computational characterization of interaction patterns and cooperativity.
  • Molecular cavitands and drug delivery β€” modelling host–guest complexes and preparing datasets for binding-affinity prediction.
  • Computational drug discovery β€” molecular docking, molecular dynamics, and structure-based analysis of potential therapeutic compounds.

Selected publications

A few examples from my publication record:

  1. High Throughput Meta-analysis of Antimicrobial Peptides for Characterizing Class Specific Therapeutic Candidates: An In-Silico Approach β€” Probiotics & Antimicrobial Proteins (2025).
  2. Modelling DNA-ligand interactions through variable force-field based MD simulations β€” Indian Journal of Chemistry (2024).
  3. Discerning Potent CSF-1R inhibitors for Targeting and Therapy of Neuroinflammation using Computational Approaches β€” Journal of Biomolecular Structure and Dynamics (2024).
  4. Tracing the Transition from Covalent to Non-covalent Functionalization of Pyrene through C-, N-, and O-based Ionic and Radical Substrates using Quantum Mechanical Calculations β€” RSC Advances (2023).
  5. Binding propensity and selectivity of cationic, anionic, and neutral guests with model hydrophobic hosts: A first principles study β€” Journal of Computational Chemistry (2023).

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GitHub activity

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Teaching, mentoring & collaboration

Alongside research, I enjoy teaching computational chemistry and biology, preparing hands-on training material, and mentoring students on molecular modelling, docking, simulation, and data-driven workflows. I have contributed to workshops and training programmes, including sessions on Python-based data mining and computer-aided drug discovery.

I'm interested in collaborations involving:

  • AI/ML for molecular and protein science
  • Ligand-based drug design and molecular interaction analysis
  • Curated datasets for molecular property and enzyme activity prediction
  • Computational chemistry, molecular dynamics, and reproducible research software

LinkedIn Email

Physics-informed thinking. Reproducible computation. Better scientific tools.

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