Scientist II, mRNA Research & Production

Profluent is an AI-first protein design company. Founded in 2022, we develop deep generative models to design and validate novel, functional proteins to revolutionize biomedicine. Based in Emeryville, CA, we are backed by leading investors including Altimeter Capital, Bezos Expeditions, Spark Capital, Insight Partners, Air Street Capital, AIX Ventures, and Convergent Ventures, and have raised over $150M to date. Profluent is seeking a highly motivated Scientist II to drive mRNA production and process development for our customized base editor programs. This is a hands-on, lab-based role focused on the synthesis, purification, characterization, and optimization of research-grade mRNA for high-throughput screening, cell-based assays, and scaled production for mouse studies. This individual will serve as the technical lead for Profluent’s internal mRNA production core function, bridging molecular design and high-quality material generation for in vitro and in vivo studies. The successful candidate will bring strong experience with IVT-based mRNA production, template preparation, purification, analytics, troubleshooting, and workflow optimization, as well as the ability to coordinate and mentor a small team executing routine production and analytical workflows. The role will initially focus on customized base editor mRNAs and will expand over time to support additional programmable genome engineering modalities, including engineered recombinases and other RNA-delivered therapeutic systems. Responsibilities Lead and execute end-to-end research-grade automated mRNA production workflows, including template preparation, plasmid DNA sequencing data analysis, linearization, IVT, capping or cap analog workflows, nucleotide modification, purification, buffer exchange, storage, and batch release for research use Design mRNA (5’/3’ UTR, coding sequence, modifications, etc.) to improve protein yield, activity, and specificity using established and cutting-edge methodology Manage and mentor a small mRNA production core function, helping coordinate production schedules, train team members, review batch quality, and maintain reliable material delivery to R&D teams Partner with payload engineering, delivery, in vivo pharmacology, bioanalytics, and translational teams to ensure mRNA materials are fit-for-purpose for platform and program needs Produce high-quality mRNA for rapid screening of customized base editors in cell-based assays, as well as scaled batches to support mouse studies, assay development, and early translational experiments Improve IVT and purification workflows to increase yield, purity, consistency, turnaround time, and functional performance while minimizing impurities such as dsRNA, abortive transcripts, truncated products, residual template DNA, endotoxin, and other process-related contaminants Implement and interpret fit-for-purpose mRNA analytical assays, including concentration, integrity, transcript purity, size distribution, dsRNA, residual DNA, endotoxin, and functional expression or potency readouts Use analytical platforms such as Fragment Analyzer, TapeStation, Bioanalyzer, gel or capillary electrophoresis, HPLC/UPLC, dsRNA ELISA, endotoxin assays, qPCR/ddPCR, and cell-based assays to characterize mRNA quality Engage and coordinate CROs for production and analytics Maintain clear SOPs, batch records, analytical summaries, sample inventories, and production documentation to support reliable material handoff and reproducible workflows Analyze production and analytical data to troubleshoot batch failures, identify process trends, and recommend improvements to quality, speed, and robustness Support mRNA production workflows for emerging programmable genome engineering modalities, including engineered recombinases, as Profluent’s platform and portfolio evolve Qualifications PhD, MS, or BS in molecular biology, biochemistry, chemical engineering, bioengineering, biotechnology, pharmaceutical sciences, or a related discipl