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As a Senior Automation Engineer at Helix, I apply my Hamilton programming and software development skills to design, optimize, and troubleshoot automation solutions for Next Generation Sequencing (NGS) workflows. With over 12 years of experience in the field of genomics, I have successfully led and supported multiple projects involving exome sequencing, viral sequencing, and Covid testing, using state-of-the-art liquid handling systems and instruments.I have a proven track record of delivering innovation, quality, and efficiency in complex and dynamic environments. I have managed cross-functional teams, collaborated with industry-leading vendors, and provided technical leadership and guidance to clinical production and R&D staff. I am passionate about advancing the field of genomics and applying my extensive experience and skills to impactful projects that improve human health and well-being.
Nucleix Ltd.
View- Website:
- nucleix.com
- Employees:
- 18
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Automations EngineerNucleix Ltd. Nov 2024 - PresentSan Diego, California, United States -
Senior Automation EngineerHelix Sep 2021 - Jan 202492037• Demonstrated expertise in Hamilton programming and software development, excelling in troubleshooting equipment issues, performing complex system tests, calibrations, and validations.• implemented and enhanced liquid handler methods for a high-throughput Exome library prep, ViralSequencing Surveillance, and Covid qPCR testing pipelines, continuously iterating for optimal performance and risk mitigation based on feedback from Clinical Production and R&D.• Conducted analyses, identified gaps, and executed controlled experiments to optimize processes for commercial levels of stability, robustness, and performance.• Provided technical leadership in transferring new processes and products to clinical production.• Created methods to test behavior anomalies, including pipetting, plate movements, LIMS communication, magnetic SPRI, temperature settings, and autoload issues.• Proficient in Hamilton software and hardware installations, leveling, calibrations, and IQ/EQ processes.• Maintained, repaired, and conducted annual/semi-annual PMs on a fleet of 40 Hamilton robots across multiple clinical labs, utilizing Hamilton Service Software, macros, custom methods, and Artel Liquid Verification System.• Educated, offered guidance to, and mentored junior-level engineers while also conducting training for clinical lab personnel.• Collaborated with cross-functional teams to ensure the alignment of all development activities with clinical lab guidelines and policies.• Deployed, upgraded, and maintained various 3D printers for prototypes, custom carrier parts, and lab tools, demonstrating proficiency in OctoPi, Octoprint, Klipper, Cura, and Marlin software.• Establishing a new-hire lab personnel training program, creating department SOPs, implementing an optimized Jira ticketing system, and deploying an App Launcher update protocol.• Took the lead in LIMS transition from Clarity to Semaphore, custom carrier rollouts, and created a method database on Confluence. -
Lab Manager, Sequencing ProductionOmniome Inc. Feb 2020 - Nov 2020La Jolla, CaManaged and trained a team of over 15 core technical staff in the utilization of cutting-edge, proprietary NGS instrumentation and techniques.• Acted as a liaison and Point of Contact (POC) between various departments, including R&D, Process Development, Engineering, System Integration, Bioinformatics, Software, IT, Facilities Operations, Collaborations, and the NGS laboratory.• Oversaw the operations of experimental and standard NGS workflows, ensuring high level of quality and reliability in the generated results.• Developed innovative processes to align with and support the company's sequencing core, instrument development, and chemistry goals.• Established and implemented policies, procedures, and standards for lab operations to ensure the efficiency (5S), efficacy, and quality control of the laboratory.• Executed and troubleshooted quality control runs, actively monitoring and generating sequencing data reports.• Applied established scientific techniques to compile and analyze data and interpret results.• Conducted setup, adjustment, calibration, cleaning, maintenance, and troubleshooting of laboratory and sequencing equipment. Managed material orders and inventory to maintain supplies.• Participation in R&D weekly meetings to stay current with advancements in chemistry.• Developed and maintained training and safety programs for laboratory personnel, actively contributing to safety programs, committees, or teams to foster a positive and secure work environment.• Promoted and hired to facilitate the rapid growth of the laboratory. -
Automation Specialist, Manager Of Ngs And Functional GenomicsLa Jolla Institute For Immunology Jan 2012 - Feb 2020La Jolla, Ca• Led cross-functional teams in planning and executing technical activities for NGS workflow, emphasizing on automation to enhance scalability and efficiency.• Developed and optimized high-throughput sample processing methods using automated liquid handlers (Beckman, Hamilton, Agilent), enhancing workflow stability and performance. Conducted troubleshooting and root cause analysis for complex automation issues.• Collaborated with vendors (eg Illumina, Beckman Coulter, Agilent, Swift, Nugen) to evaluate and certify robotic library preparations, ensuring seamless integration with existing systems.• Managed maintenance, scheduling, and operation of various equipment, including liquid handlers, sequencers, qPCR machines, plate readers, and plate sealers.• Supervised a team of scientists and technicians, providing training and support to meet increasing labor demands.• Analyzed data to optimize automation performance and workflows, driving continuous improvement initiatives.• Provided expertise in experimental design and troubleshooting to internal and external clients, tailored to project requirements.• Engineered custom reagents and genomic pipelines, assisting clients with library design, preparation, sequencing, and troubleshooting.• Standardized automation processes through SOPs, QC methods, and regulatory documentation.• Supported Bioinformatics Core to streamline analysis pipelines and developed in-lab custom pipelines for RNA/DNA prep QC bioinformatic analyses.• Managed budgets and proposed capital equipment upgrades for growth, overseeing budgeting and inventory management.• Manufactured in-house TN5 transposase library prep reagents, including protein purification. -
Graduate Teaching AssistantSan Diego State University Sep 2007 - Sep 2009Greater San Diego Area• Runner-up in Biology Outstanding TA of the year 2009• Taught undergraduate biology lab twice weekly, prepared lectures, developed group learning exercises, composed weekly quizzes, graded exams and lab reports.
Jeremy Day Skills
Jeremy Day Education Details
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Cell/Cellular And Molecular Biology -
Cell/Cellular And Molecular Biology
Frequently Asked Questions about Jeremy Day
What company does Jeremy Day work for?
Jeremy Day works for Nucleix Ltd.
What is Jeremy Day's role at the current company?
Jeremy Day's current role is Automation Scientist/Engineer (emphasis in NGS).
What is Jeremy Day's email address?
Jeremy Day's email address is jd****@****lse.com
What schools did Jeremy Day attend?
Jeremy Day attended San Diego State University-California State University, San Diego State University-California State University.
What skills is Jeremy Day known for?
Jeremy Day has skills like Customer Service, Microsoft Word, Powerpoint, Dna Sequencing, Life Sciences, Time Management, Microsoft Office, Leadership, Biochemistry, Polymerase Chain Reaction, Next Generation Sequencing, Functional Genomics.
Who are Jeremy Day's colleagues?
Jeremy Day's colleagues are Olga Antonova, Orna Savin, Shiri Nathansohn, James Olivier, Anna Miller, Yuval Droucker, Dov Terkieltaub.
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