---
title: 'Flagship Pioneering ML Internship at Flagship Pioneering, Inc.'
canonical: 'https://feeny.ai/job/flagship-pioneering-ml-internship-flagship-pioneering-inc-cambridge-dsf2d8q572m7'
type: 'job'
last_seen: '2026-11-06'
---

# Flagship Pioneering ML Internship at Flagship Pioneering, Inc.

- **Company:** Flagship Pioneering, Inc.
- **Location:** Cambridge, MA
- **Posted:** 2026-11-02
- **Last confirmed live:** 2026-11-06
- **Apply:** https://boards.greenhouse.io/flagshippioneeringinc/jobs/8782467002?gh_jid=8782467002

## Job description

AI and ML at Flagship Pioneering: Flagship Pioneering is a scientific innovation engine that invents and builds companies that change the world. We bring entrepreneurial scientists together with experienced company builders and assemble the capital to allow them to take courageous leaps in human health, sustainability, technology and beyond. Artificial intelligence is core to how Flagship conceives and builds companies. We call our approach polyintelligence: human creativity and nature’s intelligence integrating and coexisting with artificial intelligence. This model runs across our ecosystem, where teams pair advances in AI and machine learning with foundational science to move from idea to concept faster and build AI-native companies that were previously out of reach.

Who we are looking for: Computational scientists and engineers with broad interests and experience applying deep technical experience to out of distribution scientific questions. Standalone implementation isn’t the goal, it is creatively spotting opportunities where extension, modification and combination of bleeding edge computational and technical approaches can unlock new capabilities to solve consequential problems. Strong candidates will combine software engineering fundamentals with a readiness to embrace agentic development tools/practices and have experience implementing machine learning models and workflows across multiple model classes or scientific domains.

The Experience: You will collaborate with Flagship Origination Teams and fellow ML scientists/engineers to explore what is made possible by big leaps beyond the current capabilities of AI. You will begin by asking ‘What if’ across a variety of ideas and building a ‘future backwards’ case for what needs to be true for them to become a reality. You will explore the tradeoffs across multiple options, including what and how much data is needed and where it might come from. You will work towards implementation and evaluation plans that enable us to address the real uncertainties, not just what is easy to measure. With a project defined, you will begin to implement, evaluate and iterate. You will leverage Flagship's scalable GPU compute resources, data from our ecosystem, and the extensive expertise available across our teams.  You will implement the benchmarking capabilities needed to measure what matters and evaluate your designs. We will learn along the way and be ready to pivot on methods. Final work products are never just a model or a paper, they are wholistic answers to the future backwards questions we ask ourselves when originating the next big leap company.

The pay range for this role is $7,000 - $9,000 per month. This role is a short-term engagement that is not eligible for health and welfare benefits. Compensation and benefits information is based on Flagship Pioneering'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.

## About Flagship Pioneering, Inc.

## Company Overview
- **One-liner**: Flagship Pioneering is a life sciences venture creation firm that conceives, creates, and capitalizes breakthrough bioplatform companies in biotechnology, health, and sustainability.
- **Entity Type**: Private (Venture Creation Firm)
- **Headquarters**: Cambridge, Massachusetts, United States
- **Founded**: 2000
- **Founders**: Noubar Afeyan (Co-Founder & CEO)

## Core Business
- **Primary industry/industries**: Biotechnology Research, Life Sciences Venture Creation, Company Incubation
- **Target customers**: B2B / B2G – partners with academic institutions, pharma companies, and investors; also acts as an employer for scientists, entrepreneurs, and corporate builders
- **Mission or purpose statement**: “To harness the 21st century's most powerful technological forces for good to deliver a better future for all.”

## Products & Services
Flagship does not sell products directly; its offerings are the companies it creates and the innovation platform it operates.
- **Innovation Platform**: A systematic, institutionalized process to identify “unreasonable” scientific questions, test them rigorously, and spin out independent companies that develop therapeutics, diagnostics, agricultural technologies, and more.
- **Portfolio Companies**: Over 120 companies founded, including Moderna, Generate:Biomedicines, Inari Agriculture, Tessera Therapeutics, Lila Sciences, and others. Each is a separate enterprise with its own products (e.g., mRNA vaccines, gene-editing tools, AI-driven drug discovery).

## Market Standing
- **Valuation/Market Cap**: Not publicly disclosed (privately held)
- **Key Metric**: Annual revenue of approximately $800 million (2025/2026 estimate) and 620 employees (+9.7% YoY growth)
- **Notable Investors/Partners**: Flagship is itself an investor and partner; key collaborations include AWS (to accelerate drug discovery), Harvard Medical School, Broad Institute, and multiple top-tier biopharma companies. Portfolio company Moderna is a publicly traded giant.
- **Growth Signals**: 78 active job postings (+50% quarterly), recent formation of Terion (digital agriculture infrastructure) and Serif Biomedicines (modified DNA platform), and expanded presence in Europe and Asia.

## Competitive Advantages
- **Unique Model**: Combines scientific exploration, company creation, and capital investment under one roof – “a way that is largely without precedent”
- **Deep Talent Pool**: Exceptional network of scientist-entrepreneurs and company builders; top hires from MIT, Harvard, Biogen, Novartis, and Pfizer
- **Track Record**: Over two decades of founding transformational companies (e.g., Moderna’s COVID‑19 vaccine), demonstrating repeatable innovation
- **Process-Driven**: Systematic methodology for turning “what‑if” questions into patentable bioplatforms, reducing risk compared to ad‑hoc startup creation

## Strategic Focus
- **Current priorities**: Expanding AI/machine learning integration across drug discovery and life sciences (highlighted by AWS collaboration); entering preemptive health and medicine; advancing sustainable agriculture and climate solutions; growing international operations (UK, Singapore, Canada, Switzerland, Japan)
- **Direction for growth**: Launching new platform companies at a steady cadence (e.g., Terion, Serif in 2026); deepening expertise in computational protein design, modified DNA, and gene editing

## Why Work Here
- **Culture**: “Brave and bold organization of creative-thinkers with insurgent mindsets” – emphasis on fearlessness, mentorship, and teamwork across science and business
- **Work Environment**: Headquarters in Cambridge, MA with 5 US offices; roles span research, strategy, finance, and operations; hybrid/remote flexibility varies by role
- **Notable Perks**: Opportunity to work on world-changing science (e.g., COVID‑19 vaccine, gene editing) alongside top scientists and company builders; strong compensation (salary range example: Sr. Associate ~$68K, ML Engineer ~$122K; overall comp rating 3.7/5)
- **Engineering/Science Culture**: Heavy investment in R&D (15% of workforce in research), cutting-edge tools (Cryo‑EM, AI/ML), and a process that encourages bold leaps

## Sources
1. [flagshippioneering.com](https://www.flagshippioneering.com/)
2. [flagshippioneering.com/about](https://www.flagshippioneering.com/about)
3. [flagshippioneering.com/join](https://www.flagshippioneering.com/join)
4. [flagshippioneering.com/join/roles](https://www.flagshippioneering.com/join/roles)
5. [linkedin.com/company/flagship-pioneering](https://www.linkedin.com/company/flagship-pioneering)

## Other roles at Flagship Pioneering, Inc.

- [Senior Research Associate / Associate Scientist, Nonclinical](https://feeny.ai/job/senior-research-associate-associate-scientist-nonclinical-flagship-pioneering-kpyk97evc5j0) — Cambridge, MA
- [Senior Analog/Mixed-Signal Hardware Engineer, Single-Molecule Sensing Instrumentation](https://feeny.ai/job/senior-analog-mixed-signal-hardware-engineer-single-molecule-sensing-jngdq7cygjxb) — Cambridge, MA
- [FL114: Senior Research Associate, Genomics](https://feeny.ai/job/fl114-senior-research-associate-genomics-flagship-pioneering-inc-cambridge-0q5q7ej897wv) — Cambridge, MA
- [FL114: Scientist, Genomics](https://feeny.ai/job/fl114-scientist-genomics-flagship-pioneering-inc-cambridge-7y7dcef63454) — Cambridge, MA
- [Sr. Scientist, Protein & Cell Sciences](https://feeny.ai/job/sr-scientist-protein-cell-sciences-flagship-pioneering-inc-somerville-ma-qpeg3dfcafh3) — Somerville MA, United States
- [Senior Director, Platform Experience](https://feeny.ai/job/senior-director-platform-experience-flagship-pioneering-inc-cambridge-cqx7ym4352dv) — Cambridge, MA
- [Principal Scientist, Structural Biology / Protein Biophysics](https://feeny.ai/job/principal-scientist-structural-biology-protein-biophysics-flagship-pioneering-hmdq4s5y31f7) — Cambridge, MA
- [Senior Scientist, LNP Formulations](https://feeny.ai/job/senior-scientist-lnp-formulations-flagship-pioneering-inc-cambridge-ztwykh5vnq98) — Cambridge, MA
- [Research Associate II/Senior Research Associate, LNP Production](https://feeny.ai/job/research-associate-ii-senior-research-associate-lnp-production-flagship-bwk9zn8pyhy8) — Cambridge, MA
- [Senior ML Engineer](https://feeny.ai/job/senior-ml-engineer-flagship-pioneering-inc-cambridge-aexf2nmm2e1x) — Cambridge, MA