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vaishnavpvarma/README.md

Hi there 👋

Hi, I'm Vaishnav P. Varma 👋

Bioinformatics Banner


👨‍🔬 About Me

I’m a Bioinformatics postgraduate from Alagappa University, deeply passionate about the computational exploration of life sciences. My academic and research journey has led me to work on a wide array of projects, including:

  • 🧬 Reverse Vaccinology against Hepatitis B Virus
  • 🦠 Bacterial Gene Prediction & Functional Annotation
  • 🧪 Proteomic Analysis & Immunoinformatics Pipeline Building
  • 💻 Molecular Modelling, Docking, and Immune Simulation
  • 🧠 Interested in AI/ML applications in Structural Bioinformatics

My ultimate goal is to bridge the gap between data and discovery, especially in the context of infectious diseases and host-pathogen interactions.


🧰 Tech & Tools

🖥️ Programming & Scripting

Python R Perl

🔬 Bioinformatics & Cheminformatics

  • 🔎 Molecular Docking | MD Simulations | Codon Optimization
  • 🧬 Sequence Clustering | Epitope Mapping | CADD
  • 📊 Functional Genomics | Structure Prediction | Immunoinformatics
  • 🧠 Data-driven design using IEDB, NetMHC, AlphaFold2, SWISS-MODEL

🧪 Recent Projects

Project Description Tools
🦠 HBV Multi-Epitope Vaccine Designed using reverse vaccinology, immune simulation, docking & MD NetMHC, IEDB, VaxiJen, GROMACS
🔍 Thermodesulfobium narugense Genome Analysis Annotated & predicted gene functions using multiple microbial pipelines Prokka, PGAP, RAST, BLAST
🔬 Proteome-Based Target Identification Filtered drug targets by subcellular location, virulence, essentiality PSORTb, DEG, VFDB, KEGG

📘 Publications & IP

  • 🧾 Patent Granted (India): "An Apparatus for Collecting Tree Sap" (No. 520964)
    Tackles Nipah virus transmission via hygienic palm sap collection.
  • 📗 Book Chapter: "Evaluation of Periodicity & Impact of Convenience Foods"

🌱 I’m currently learning

  • 🧠 Machine Learning for Drug Design
  • 🧪 High-Throughput Data Analysis
  • ⚗️ Protein-Ligand Interaction Modelling
  • 🔁 GitHub Actions and CI/CD for Bioinformatics Pipelines

📫 Let’s Connect


📊 GitHub Stats


🚀 Goals

  • 🎯 Apply for PhD in Structural Bioinformatics / Cheminformatics
  • 🤝 Collaborate on impactful scientific research
  • 💡 Contribute to open-source bioinformatics tools

“From knowing nothing to something — staying consistent and never giving up.”

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  1. vaxijen-antigenicity-parser vaxijen-antigenicity-parser Public

    Automated parser for VaxiJen output 🚀 A lightweight Perl tool to extract and tabulate antigenicity predictions from VaxiJen . Designed for bioinformatics, immunoinformatics, and reverse vaccinology…

    Perl 2