# Brendan Wee > Senior Engineer at Calico Life Sciences Location: San Francisco, California, United States Profile: https://flows.cv/brendanwee Experienced Senior Engineer with a demonstrated history of working in the biotechnology industry. Proven history collaborating with lab and data scientists to create streamlined solutions. Strong engineering professional with a Master of Science - MS focused in Computational Biology from Carnegie Mellon University. ## Work Experience ### Senior Software Engineer @ Calico Life Sciences Jan 2024 – Present ### Engineer @ Calico Life Sciences Jan 2022 – Jan 2024 | South San Francisco, California, United States ### Senior Engineer @ Second Genome Inc. Jan 2019 – Jan 2022 | South San Francisco, California, United States * Collaborated with wet-lab scientists to implement powerful automation programs and microbiome simulation algorithms * Communicated with informatics scientists and managers to architect data structures and access systems to facilitate downstream analysis * Planned and conducted test experiments to bring new technologies, tools, and modules into production * Familiarity working with large scale multi-omics datasets including shotgun-metagenomic sequencing, RNAseq, whole genome sequencing, and proteomics * Designed, developed, optimized, and maintained highly-scalable cloud-based microservice batch processing system. Patent Pending * Implemented cloud based monitoring solutions for cloud stack including microservices, databases, and user behavior * Identified, assessed, and proactively patched security risks across cloud system components * Documented network, servers, and microservices in architecture-as-code templates * Monitored and maintained extensive CI/CD stack * Created machine learning analysis platform stewarding data through curation, preprocessing, feature selection, model optimization and selection for biomarker identification in Uclerative Colitis datasets * Architected multi-database ETL architecture that pooled public and private data sources. Modernized legacy databases into multi-tenant architecture. * Support the development, curation, and expansion of RDS and graph databases of multi-omics data and associated metadata in a modular way ### Graduate Research Assistant @ Carnegie Mellon University Jan 2018 – Jan 2019 | Greater Pittsburgh Area Analyzed differential transcription and translation on RNA-seq and Ribosomal profiling data in infected mice Implemented various bioinformatics pipelines via batch scripts on the Pittsburgh Supercomputer Identified novel and existing translated open reading frames from ribosome profiling data ### Graduate Student @ Carnegie Mellon University Jan 2017 – Jan 2019 | Greater Pittsburgh Area ### Technology Integration and Bioinformatics Intern @ Zymeworks Inc. Jan 2018 – Jan 2018 | Vancouver, Canada Area Collaborated with antibody discovery scientists to develop so ware for experiment design Implemented antibody search tool for querying the Zymeworks antibody database Developed antibody numbering tool for annotating antibodies in various formats Completed and committed all projects to Zymeworks codebase prior to deadlines ### Research Associate - Sequencing @ Cepheid Jan 2016 – Jan 2017 Operates Illumina MySeq and other NGS devices for amplicon and genomic samples Optimization and automation of library preparation methods Comprehensive library preparation for amplicon and genomic DNA Troubleshooting and investigative support for Cepheid's developing assays Development of bioinformatics tools using Python ### Research Associate _ Via Richmar Associates @ Cepheid Jan 2015 – Jan 2016 Optimize PCR conditions for Cepheid diagnostic assays. Evaluate new enzymes for possible assay incorporation. Organized data management and analysis. Design and conduct diagnostic research procedures/protocols for infectious diseases. ### In-process Bio Test Operator @ Cepheid Jan 2015 – Jan 2015 Real time in lab sample preparation, product integrity testing, and PCR testing for Cepheid Cartridges made off the manufacturing line. Comprehensive Database management for networked lab stations. Detail oriented paperwork and filing in a factory paced environment under FDA regulations. ### Intern @ Homewood Capital Management Inc. Jan 2014 – Jan 2015 Comprehensive back office data management for Investment Management Firm with 85 Million in Client Assets. Responsible for physical and digital filing for 30+ year of insurance records. Alternates between filing insurance policies, executing trades, inventory upkeep, and accounting in a fast-paced environment. ## Education ### Master of Science - MS in Computational Biology Carnegie Mellon University ### Bachelor's degree in Biology UCLA ## Contact & Social - LinkedIn: https://linkedin.com/in/brendan-wee --- Source: https://flows.cv/brendanwee JSON Resume: https://flows.cv/brendanwee/resume.json Last updated: 2026-04-01