Hi, I'm a bioinformatics researcher passionate about exploring the fascinating world of viruses and proteins.
I hold a Master's in Biotechnology and Genetics and a PhD in Computational Modeling. Currently, I focus on:

• 🌟 Antigenic protein structures of viruses like Influenza and SARS-CoV-2.
• 🧬 Using computational tools to study genome assembly, phylogenetics, and protein structure prediction.

• Virology: Genome evolution and assembly.
• Protein Structure: Structural modeling and prediction of antigenic proteins.
• Bioinformatics Tools: Developing scripts for genome analysis and phylogenetic studies.
• Structural Modeling: SARS-CoV-2 spike proteins and immune system interactions.
• Molecular Dynamics Simulations: Understanding protein dynamics to explore conformational landscapes and energy minima.
• Dimensionality Reduction and Clustering: Applying techniques like PCA, t-SNE, and DBSCAN to identify preferred structures and key energetic minima in molecular simulations.
• Protein-Protein Interaction: Studying interactions critical for host-pathogen dynamics.
• Computer-Aided Drug Design (CADD): Developing computational pipelines for drug discovery.

• Scikit-learn
• Scipy
• Matplotlib
• Biopython
• Pyemma
• Mdtraj
• Gromacs
• Amber
• Namd
• NextStrain
• IQ-Tree
• MEGA (Molecular Evolutionary Genetics Analysis)
• HYPHY

• Linux Servers: Managing high-performance servers for data-intensive tasks.
• Configuration of compute clusters and pipeline optimization.

1. Structural Analysis of Influenza HA Protein

   • Modeling antigenic determinants for vaccine improvement.

2. Comparative Study of Viral Genomes

   • Investigating mutation rates in SARS-CoV-2 across regions.

3. Bioinformatics Course Development

   • Designing a course on genome assembly, phylogenetics, and protein structure prediction.

Feel free to reach out and collaborate!

• 🌐 LinkedIn
• 📧 Email: vinicius.carius.souza@gmail.com
• 📧 Email: carius.souza@gmail.com
• 💻 GitHub