Nasim Sanati

About

Senior Bioinformatics Software Engineer

A bit on my education and background... I fast-tracked my academic journey through a joint PSU-OHSU program, earning a BS in Computer Science and a Master’s in Bioinformatics & Computational Biomedicine in just five years. This unique experience gave me the invaluable opportunity to immerse myself in the realms of both computer science and Bioinformatics (Biology/Molecular Biology , Chemistry, Statistics, Algorithms/Programming) simultaneously, gaining insights from both disciplines and experiencing the best of both worlds.

My work today centers on designing AI systems and data infrastructure for biomedical research, with a focus on task-oriented AI agent orchestration that supports real-world scientific workflows at consortium scale. My background includes hands-on bioinformatics analysis, machine learning, and embedding-based methods, with experience spanning pathway-driven druggable genome research, scRNA-seq analysis + ReactomeFIViz single-cell pipeline, and DREAMChallenges analysis/workflows.

I'm especially drawn to clinical actionability, helping research and clinical decision-making come full circle to improve patient outcomes in early detection, cancer research, and clinical trial environments.

Outside of work, you'll find me paddle boarding, biking, gardening, exploring art and nature, or curled up with a good book. I cherish spending time with my daughter, whose curiosity and perspective inspires me every day.

CV

Education

MS. Biomedical Informatics and Computational Biomedicine

2014 - 2016

Oregon Health and Science University - DMICE Division of Bioinformatics & Computational Biomedicine

BS. Computer Science

2013 - 2015

Portland State University - Maseeh College of Engineering and Computer Science

Personal Project

D3.JS Weather App

https://wx7.app/

Professional Experience

Computational Biologist - AI Systems Engineer + Biomedical Data Infrastructure + Analysis

In a multi-institutional research environment

@ OHSU Knight Cancer Institute

Jan 2024 - Current

Currently working on: A Multi-Agent MCP Server for Cross-Modal Biomedical Embedding Alignment Evaluated on Tumor Microenvironment Characterization
GitHub repo: Omicstra

Senior Research Software Engineer

Oct 2022 - Feb 2023

Genentech (Apex Systems) - Data Science and Statistical Computing team

Research Software Developer

Aug 2019 - Aug 2021

OHSU - Reactome

Bioinformatics Scientist

Feb 2019 - Aug 2019

Phylos Bioscience - Data Science team

Research Associate

Mar 2017 - May 2018

Sage Bionetworks - Computational Oncology team

GSOC Mentorship

BIOINFORMATICS RESOURCE: DESCARTES + REACTOME PATHWAYS

Systematic pathway activity feature extraction from Descartes single-cell data.

link to project

BIOLOGICAL PROCESSES FEATURE EXTRACTION (ML)

Gene markers' pathway embedding of the Human Reactome pathway hierarchy graph.

link to project