---
title: 'Senior Automation Engineer, Platform Biology at Vesalius Therapeutics'
canonical: 'https://feeny.ai/job/senior-automation-engineer-platform-biology-vesalius-therapeutics-cambridge-c3y5p6dr249e'
type: 'job'
last_seen: '2026-09-13'
---

# Senior Automation Engineer, Platform Biology at Vesalius Therapeutics

- **Company:** Vesalius Therapeutics
- **Location:** Cambridge, MA
- **Posted:** 2026-08-04
- **Last confirmed live:** 2026-09-13
- **Apply:** https://job-boards.greenhouse.io/vesalius/jobs/8651012002

## 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](https://www.flagshippioneering.com/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.

## About Vesalius Therapeutics

## Core Business
- **Primary industry**: Biotechnology / Drug Discovery & Development
- **Target customers**: B2B (partners like GSK) and ultimately patients with common diseases (heart failure, type II diabetes, Alzheimer’s, NASH, obesity, Parkinson’s)
- **Mission or purpose**: “To fundamentally reconceptualize the way we view, diagnose, and treat common diseases” – focusing on the 90% of human illness that current approaches have struggled to address.

## Products & Services
- **Physio-Logic Platform**: A proprietary AI-driven discovery engine that analyzes clinical and genetic data from large patient groups to identify novel disease subtypes and drug targets. It validates insights using patient-derived cell-based models, streamlining drug discovery and increasing clinical trial success rates. [vesaliustx.com](https://www.vesaliustx.com/)
- **Pipeline (Parkinson’s Disease)**: In November 2024, Vesalius entered a multi-target strategic alliance with GSK to discover and develop novel treatments for Parkinson’s disease. [vesaliustx.com](https://www.vesaliustx.com/press/vesalius-announces-multi-target-strategic-alliance-with-gsk-to-develop-breakthrough-treatments-for-people-afflicted-with-parkinsons-disease/)
- **Other Indications**: The platform is being applied to heart failure, type II diabetes, Alzheimer’s disease, NASH, obesity, and other common diseases. [vesaliustx.com](https://www.vesaliustx.com/)

## Market Standing
- **Valuation/Market Cap**: Not disclosed (private company)
- **Total Funding**: $155M raised to date (includes initial $75M commitment from Flagship Pioneering and subsequent rounds, with corporate minority investment from GSK and participation by ARCH Venture Partners). [cbinsights.com](https://www.cbinsights.com/company/vesalius-therapeutics)
- **Notable Investors/Partners**: Flagship Pioneering (founder and lead investor), GSK (strategic alliance and investor), ARCH Venture Partners. [cbinsights.com](https://www.cbinsights.com/company/vesalius-therapeutics)
- **Growth Signals**: 
  - Multi-target alliance with GSK for Parkinson’s (Nov 2024).
  - New CEO appointed in Sept 2025 (Yasir Al-Wakeel, CEO-Partner of Flagship).
  - Active hiring for senior roles (Head of Biology, AI Enablement, Computational Biology).
  - Platform described as “revolutionary” by Flagship.

## Competitive Advantages
- **AI‑driven patient stratification**: Uses AI and machine learning to uncover previously unrecognized clinical patterns and gene circuits, enabling precision targeting of diseases that were historically treated as monolithic.
- **Proprietary human‑based models**: Patient-derived cell-based experimental models that better recapitulate human disease biology than traditional animal models.
- **Flagship Pioneering ecosystem**: Access to deep capital, entrepreneurial expertise, and a network of other Flagship-founded companies.
- **Focus on common diseases with high unmet need**: Targets the 90% of human illness where drug development has stagnated, offering a massive addressable market.

## Strategic Focus
- **Deepening the pipeline**: Advancing the GSK Parkinson’s alliance while expanding into other common diseases (cardiometabolic, neurodegenerative).
- **Platform scaling**: Continuing to refine the Physio-Logic platform with larger datasets and more sophisticated AI/ML models.
- **Talent acquisition**: Building a world-class team across computational biology, AI, drug development, and research. [greenhouse.io](https://job-boards.greenhouse.io/vesalius)

## Why Work Here
- **Culture**: The company describes itself as “fearless, focused, agile, data-driven and persistent,” with a strong emphasis on teamwork and continuous learning. [vesaliustx.com](https://www.vesaliustx.com/careers/)
- **Work environment**: Based in Cambridge, MA (620 Memorial Drive) – a hub for biotech innovation. The office policy is not explicitly stated, but the majority of roles listed are on-site in Cambridge.
- **Perks & engineering culture**: Opportunity to work at the intersection of AI, genomics, and drug discovery within a well-funded Flagship company. Roles include cutting-edge computational biology, machine learning, and AI enablement. Employees get exposure to a high-caliber scientific advisory board and leadership team with deep industry experience.
- **Growth trajectory**: With a recent GSK partnership and active hiring, the company is in a growth phase, offering significant career development potential.

## Sources
1. [vesaliustx.com](https://www.vesaliustx.com/) – Company website (platform, mission, leadership, careers)
2. [flagshippioneering.com](https://www.flagshippioneering.com/companies/vesalius-therapeutics) – Flagship Pioneering company page (overview, founding, news)
3. [cbinsights.com](https://www.cbinsights.com/company/vesalius-therapeutics) – Funding, investors, headquarters, stage
4. [greenhouse.io](https://job-boards.greenhouse.io/vesalius) – Active job listings (roles, location)
5. [vesaliustx.com/press](https://www.vesaliustx.com/press/vesalius-announces-multi-target-strategic-alliance-with-gsk-to-develop-breakthrough-treatments-for-people-afflicted-with-parkinsons-disease/) – GSK alliance announcement

## Other roles at Vesalius Therapeutics

- [Director, Clinical Operations](https://feeny.ai/job/director-clinical-operations-vesalius-therapeutics-cambridge-yrx9wg8d798e) — Cambridge, MA
- [Senior Automation Engineer, Platform Biology](https://feeny.ai/job/senior-automation-engineer-platform-biology-flagship-pioneering-inc-cambridge-8ceq5s1z8m7h) — Cambridge, MA