Biomedical Engineer - Software & Data Architect

Matthew Woods

Murrieta, CA ***** 951-***-**** *******************@*****.*** LinkedIn.com/in/matthew-jeffrey-woods

Biomedical Engineer Software Engineer Data Engineer

Biomedical Engineer with industry experience designing end-to-end bioinformatics, data, and scientific software systems in regulated biotechnology environments. Proven ability to develop scalable data pipelines, cloud-based applications, and analytical tools that convert high-throughput research data into actionable insights. Combines laboratory expertise with software and data engineering skills to deliver reliable solutions that meet regulatory and quality requirements.

Biomedical: Risk-Based Validation FDA QSR Medical Device QMS Nonconformance Analysis CGMP SolidWorks

Software: System Design AWS Lambda DevOps CI/CD API Design Docker Linux Cuda C++ Python

Data: ETL SQL MySQL Pytorch BLAST JMP ScikitLearn Streamlit PowerBI Julia

Work Experience

ApotheCary Consulting, Remote 01/2026 - Present

IT Consultant

Offering IT expertise and consultancy to clients by designing, deploying, and maintaining secure software systems.

●Provide IT consulting services including software deployment, cloud infrastructure support and data analytics

●Research and support federal and state government contracting efforts by identifying opportunities, preparing required documentation, and assisting with compliance and registration processes.

●Maintain company web presence and internal systems, managing version-controlled updates, troubleshooting production issues, and performing technical research to support business development and contracting strategy.

Thermo Fisher Scientific, Carlsbad CA 11/2021 - 04/2025

Data Scientist I

Engineered scalable Python and AWS pipelines to process and analyze high-throughput genomic and CRISPR data.

●Deployed AWS-hosted Django servers and Bio-IT infrastructure to support cross-functional research operations.

●Designed novel algorithms for sgRNA distribution, significantly improving data accuracy over standard platforms.

●Developed ETL pipelines and Power BI dashboards to automate real-time laboratory reporting and data analytics.

●Architected in-house Bio-IT systems, saving $20,000 annually through custom software development and hosting.

●Analyzed single-cell sequencing datasets using Python and R to evaluate complex genetic perturbations.

●Executed next-generation sequencing on Illumina/Ion Torrent platforms to ensure data integrity for CRISPR products.

Thermo Fisher Scientific, Carlsbad CA 03/2021 - 11/2021

Process Development Scientist

Developed automated root-cause detection workflows across LIMS and equipment to investigate quality deviations.

●Built automated dashboards using VBA and Power BI to track reagent stability and lab throughput capacity.

●Optimized automation scripts and liquid handler programming to improve high-throughput yields and cycle times.

●Validated CRISPR library prep and viral manufacturing to ensure ISO and FDA compliance and standards.

●Executed sequencing to validate DNA composition and cloning efficiency for customer samples and quality.

●Managed high-throughput viral production including plasmid handling, amplification, and titer normalization.

Lumira Dx, Solana Beach CA 09/2020 - 02/2021

Assay Development Researcher

Designed and manufactured plastic hydrophilic strips using AutoCAD and nitrogen laser cutting for assay platforms.

●Led root cause analysis of manufacturing nonconformities and drafted technical reports for regulatory agencies.

●Developed and executed risk-based process validation plans to improve assay reliability and consistency.

●Executed quality control and stability studies for FDA and Emergency Use Authorization of COVID assays.

●Analyzed PCR replication rates of viral RNA to ensure batch stability and adherence to quality standards.

Undergraduate Research

Keck Graduate Institute, Claremont CA 06/2019 - 09/2019

Bioprocessing Researcher

Optimized cell culture conditions and feeding schedules to maximize protein secretion and maintain cell viability.

●Developed a Quality Target Product Profile and manufacturing model for a designated bioprocessing product.

●Pitched a comprehensive product business model and regulatory pathway to department leaders and faculty.

●Monitored growth media metabolites and osmolality to analyze the impact of chemical stressors on cell health.

●Researched critical quality attributes and upstream/downstream processes for industrial-scale manufacturing.

University of California Bioengineering, Riverside CA 08/2019 - 03/2020

Molecular Biology Researcher

Engineered mutant genomic constructs using CRISPR and Golden Gate cloning to optimize industrial protein production.

●Utilized Benchling and bioinformatics tools to design plasmids and analyze gene knockouts for genomic research.

●Successfully transformed KU70 mutations and verified results using Sanger sequencing and protein ELISA assays.

●Identified key control proteins affecting protein folding and migration within the Pichia pastoris genome.

Education

Master of Science (MS) in Biomedical Engineering, University of California, San Diego CA

Bachelor of Science (BS) in Biomedical Engineering, University of California, Riverside CA

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