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Biotech Automation Jobs in Boston, MA (NOW HIRING)

Danaher

Software Automation Internships

Lowell, MA · On-site

About Automation Engineering Roles at Danaher Are you energized by solving technical problems ... biotechnology. Our global teams work every day to solve the world's most complex challenges by ...

Danaher

Software Automation Internships

Brockton, MA · On-site

About Automation Engineering Roles at Danaher Are you energized by solving technical problems ... biotechnology. Our global teams work every day to solve the world's most complex challenges by ...

Danaher

Software Automation Internships

Cambridge, MA · On-site

About Automation Engineering Roles at Danaher Are you energized by solving technical problems ... biotechnology. Our global teams work every day to solve the world's most complex challenges by ...

Vrtx

Lab Automation Engineer

Boston, MA · On-site

$85K - $128K/yr

The Lab Automation Engineer will be a part of a team dedicated to designing, implementing, and ... biotechnology company that invests in scientific innovation. Vertex is committed to equal ...

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All JobsBiotech Automation JobsBiotech Automation Jobs in Boston, MA

Biotech Automation information

See Boston, MA salary details

$33.7K

$126.7K

$184.1K

How much do biotech automation jobs pay per year?

As of Aug 10, 2026, the average yearly pay for biotech automation in Boston, MA is $126,682.00, according to ZipRecruiter salary data. Most workers in this role earn between $99,400.00 and $151,000.00 per year, depending on experience, location, and employer.

What are some common challenges faced by professionals working in biotech automation, and how can they be addressed?

Professionals in Biotech Automation often encounter challenges such as integrating new automation technologies with existing laboratory systems, ensuring data accuracy, and troubleshooting complex instruments. These issues can be addressed by staying updated with the latest industry advancements, participating in regular training, and fostering strong communication within cross-functional teams. Collaboration with IT specialists and laboratory staff is essential for smooth workflow integration and minimizing downtime. Regular maintenance and validation of automated equipment also help prevent technical issues and ensure reliable results.

What is biotech automation?

Biotech automation refers to the use of advanced technologies, such as robotics, software, and specialized instruments, to automate various processes in biotechnology laboratories and production facilities. This can include tasks like sample preparation, liquid handling, data analysis, and even large-scale manufacturing. Automating these processes increases efficiency, reduces human error, and allows researchers and companies to scale up their experiments and production. Biotech automation is essential for high-throughput screening, drug development, and modern biomanufacturing.

What are the key skills and qualifications needed to thrive in biotech automation?

To excel in Biotech Automation, a solid background in biology, engineering, or related sciences combined with experience in laboratory automation is essential. Familiarity with automation platforms (such as liquid handlers), scripting languages (like Python), and common laboratory information management systems (LIMS) is typically required. Strong problem-solving skills, attention to detail, and effective communication set top performers apart in this field. These competencies are crucial for streamlining experimental workflows, minimizing errors, and facilitating collaboration in high-throughput biotech environments.

What is the difference between Biotech Automation vs Laboratory Technician?

AspectBiotech AutomationLaboratory Technician
Required CredentialsDegree in Biotechnology, Bioengineering, or related field; certifications in automation systemsAssociate's or Bachelor's in Laboratory Science or related field
Work EnvironmentManufacturing facilities, biotech labs, automation system setupsResearch labs, clinical labs, diagnostic facilities
Employer & Industry UsageBiotech companies, pharmaceutical manufacturing, R&D centersHospitals, research institutions, diagnostic labs
Common Search & Comparison IntentUnderstanding automation roles in biotechLaboratory work and technical skills

Biotech Automation professionals focus on designing, maintaining, and improving automated systems used in biotech manufacturing and research. Laboratory Technicians perform hands-on testing, sample analysis, and lab procedures. While both roles support biotech and lab environments, Biotech Automation emphasizes system integration and automation technology, whereas Laboratory Technicians focus on manual testing and sample processing.

What are popular job titles related to Biotech Automation jobs in Boston, MA? For Biotech Automation jobs in Boston, MA, the most frequently searched job titles are:
What job categories do people searching Biotech Automation jobs in Boston, MA look for? The top searched job categories for Biotech Automation jobs in Boston, MA are:
What cities near Boston, MA are hiring for Biotech Automation jobs? Cities near Boston, MA with the most Biotech Automation job openings:
Biotech Automation jobs near you

Senior Automation Engineer, Platform Biology

Flagship Pioneering, Inc.

Cambridge, MA • On-site

$113K - $149K/yr

Full-time

Medical, Retirement

Posted 5 days ago

Job description

What if you could join a rapidly growing company and play a critical role in bringing new medicines to patients by helping scale the programmable infrastructure behind a new human cellular biology platform?
About Vesalius
Vesalius Therapeutics is pioneering a new platform to generate breakthrough treatments for common diseases. Our platform combines large-scale human genetics, genomics, stem cell studies, high-dimensional cellular phenotyping, and artificial intelligence to uncover causal biology and identify optimal intervention points for new therapies. Vesalius was founded in 2019 by Flagship Pioneering.
Role Overview
Vesalius is seeking a highly motivated Automation Engineer to help scale our automated biology platform. This early-career role sits at the intersection of biology, robotics, software, and data systems, with a focus on programming, data handling, systems integration, and workflow automation. You will partner with scientists, automation operators, IT, and data science teams to translate biological workflows into robust automated workcells and ensure experiments generate reliable, traceable, analysis-ready data. This role goes beyond operating instruments-it is focused on making automation programmable, integrated, scalable, and reliable.
Key Responsibilities
  • Develop and optimize high-throughput automated protocols that translate biological workflows from the bench to integrated workcells.
  • Partner with scientific teams to design automation solutions that balance biological fidelity, throughput, cost, reliability, and lead time.
  • Collaborate with scientists and automation operators on workflow execution, troubleshooting, training, and continuous improvement.
  • Develop and maintain automation scripts, scheduling workflows, error handling, monitoring, and instrument-control methods using tools such as Python, C#, JSON, platform APIs, and vendor-specific languages.
  • Validate automated workflows against benchtop methods, assessing precision, accuracy, reproducibility, and data quality.
  • Build integrations between automation platforms, instruments, LIMS/ELN, imaging systems, databases, and downstream data pipelines, including structured metadata capture and data handoff.
  • Integrate and troubleshoot new instruments and workcell components, including instrument interfaces or drivers where needed.
  • Apply sound software engineering practices including version control, testing, debugging, modular design, and documentation.
  • Program liquid-handling and robotic workflows across platforms such as Hamilton STAR, Dynamic Devices Lynx, HighRes Biosolutions/Cellario, and similar systems.
  • Develop barcode to workflow mapping to enable batch and sample tracking.
  • Create and maintain SOPs, method documentation, validation reports, troubleshooting guides, and other technical documentation.
Qualifications
  • Bachelor's or master's degree in computer science, engineering, bioengineering, automation, robotics, biomedical engineering, computational biology, or related field.
  • Early career experience in laboratory automation, scientific software, robotics, biotech automation, or a related environment.
  • Experience with biological workflows such as mammalian cell culture, cell-based assays, high-content imaging, high-throughput screening, NGS, or iPSC systems is strongly preferred.
  • Hands-on experience with automated liquid handlers, robotic systems, integrated workcells, laboratory scheduling software, or instrument-control methods.
  • Experience developing and troubleshooting automated biological workflows, liquid-handling methods, instrument workflows, software tools, or systems integrations.
  • Ability to troubleshoot across software, hardware, liquid handling, instrument communication, data, and sample-tracking workflows.
  • Programming experience in Python and/or C#, or comparable languages, with familiarity with Git/version control, testing, debugging, and code documentation.
  • Strong communication and documentation skills with the ability to work effectively across scientific, automation, IT, and data teams.
Preferred Experience
  • Exposure to cloud infrastructure such as AWS, event-driven integrations, or data pipelines supporting automated laboratory environments.
  • Experience with Hamilton STAR, Dynamic Devices Lynx, HighRes Biosolutions/Cellario, Beckman Biomek, Tecan, Biosero, Celltrio, Ginkgo Automation RAC systems, or similar platforms.
  • Experience with platform APIs, instrument drivers, SQL/databases, LIMS/ELN, automated metadata capture, or laboratory scheduling software.
  • Experience building tools for sample tracking, run monitoring, QC reporting, workflow validation, or automated data handoff.

At Flagship, we accept impossible missions to enable bigger leaps. Our core values guide us through uncertainty and toward lasting impact.
We are an equal opportunity employer. All qualified applicants will be considered for employment without regard to race, color, religion, sex, sexual orientation, gender identity, national origin, disability, protected veteran status, or any other characteristic protected by law.
We recognize that great candidates often bring unique strengths without fulfilling every qualification. If you have some of the experience listed above but not all, please apply anyway. We are dedicated to building diverse and inclusive teams and look forward to learning more about your background and interest in Flagship.
Recruitment & Staffing Agencies: Flagship Pioneering and its affiliated Flagship Lab companies (collectively, "FSP") do not accept unsolicited resumes from any source other than candidates. The submission of unsolicited resumes by recruitment or staffing agencies to FSP or its employees is strictly prohibited unless contacted directly by Flagship Pioneering's internal Talent Acquisition team. Any resume submitted by an agency in the absence of a signed agreement will automatically become the property of FSP, and FSP will not owe any referral or other fees with respect thereto.
The salary range for this role is $108,000 - $170,700. Compensation for the role will depend on a number of factors, including a candidate's qualifications, skills, competencies, and experience. Vesalius Therapeutics currently offers healthcare coverage, annual incentive program, retirement benefits and a broad range of other benefits. Compensation and benefits information is based on Vesalius Therapeutics's good faith estimate as of the date of publication and may be modified in the future.
Privacy Notice for Applicants: When you apply for a role at Flagship Pioneering or one of its portfolio companies, we collect and use personal information you provide (such as your name, contact details, work history, and application materials) to evaluate your application, communicate with you, and comply with legal obligations. Your application data is processed through Greenhouse, our applicant tracking system, and may also be reviewed using AI-assisted screening tools. We do not sell your personal information. California residents have rights under the CCPA/CPRA including to know, delete, and opt out of the sharing of their personal information. If you are located in the EU or UK, we process your data under GDPR and you have rights to access, rectify, and erase your data. To exercise your rights or for questions, contact privacy@flagshippioneering.com.

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