Senior developer and technical consultant with 20+ years of experience specializing in PostgreSQL, TimescaleDB, and distributed systems. Expert in database optimization, microservices architecture, and team enablement. Passionate about sharing knowledge through writing, speaking, and mentoring.
About Me: A Polymath Engineer
I am a polymath, deeply curious builder, and dedicated yogini. For over 20 years, I’ve worked across multiple disciplines—from hardcore database internals and AST parsing to generative art, financial algorithms, and now, structural biology.
I believe the most exciting breakthroughs happen at the intersection of different fields, connecting the technical with the physical and mindful. I love bridging domains, learning continuously, and sharing those discoveries through writing. Some examples of my explorations across different areas include:
- Bioinformatics & Postgres: Indexing 3D Space like a Video Game
- AST Parsing & Tooling: Building a SQL Formatter with Fast
- Database Optimization: Benchmarking Ruby ORMs
- Creative Coding & Sonification: Mandala Playground - Interactive Sonification
- Mindfulness & Movement: My Yoga Practice
🧬 Open for Biotech & Database Collaborations
My primary focus and research passion is building better systems and databases for genomic data.
With the sheer volume of structural biology and genomic data being generated today, we need better infrastructure. I am building tools (like the pg_bio extension) that push spatial math, AI vector search, and classical sequence alignment natively into the database.
I am actively looking for sponsors and partners to support and continue this research.
If you are a biotech research lab, a pharmaceutical engineering team, or a database company building the next generation of scientific tooling—I need your help. Whether through sponsorships, research grants, or direct collaboration, I am open to working with you to build the infrastructure that will power the next era of biology.
Get in touch via Email or LinkedIn!
Software Engineering Experience
Currently working at Hubstaff with Ruby and Rust, focusing on database performance optimization and system architecture. With 20+ years of experience, I bridge deep technical expertise with team empowerment.
- Focus Areas: PostgreSQL, TimescaleDB, Bioinformatics, Ruby, Rust, Time-series Data, and Microservices Migration
- Ecosystem Builder: Creator of Fast (AST-based ruby refactoring) and the official TimescaleDB Ruby gem
- Technical Output: Frequent conference speaker, open-source contributor, and author of in-depth performance and database optimization research
Featured Open Source
- pg_bio: A PostgreSQL extension written in Rust combining HNSW vector search, Smith-Waterman sequence homology, and Z-Order 3D spatial indexing for structural biology.
- Fast: Ruby code search and refactoring tool processing 100k+ LOC of production code.
- TimescaleDB Ruby: The official Ruby gem for TimescaleDB, providing deep ActiveRecord integration.
- SQL Snippets: A collection of advanced PostgreSQL and TimescaleDB proof-of-concepts, queries, and experiments.
- HP12C: The legendary financial calculator implemented in elegant Ruby.
Contact
- Email: jonatasdp@gmail.com
- GitHub: @jonatas
- LinkedIn: /in/jonatasdp
Let’s connect to discuss technical challenges, biotech infrastructure, and innovations in backend performance!