ZipRecruiter

Log In

1

Machine Learning Scientist Jobs in Boston, MA (NOW HIRING)

Cellarity

Machine Learning Scientist

Somerville, MA · On-site

We seek a Machine Learning Scientist to join our ML team and lead focused efforts in applying and adapting proprietary foundation models to enable Cellarity's predictive drug discovery platform. As a ...

New

Bayer

Principal Machine Learning Scientist

Cambridge, MA · On-site

$128K - $192K/yr

Principal Machine Learning Scientist The Principal Machine Learning Scientist will develop novel machine learning algorithms and workflows for accelerating early-stage drug discovery. In this role ...

Bayer

Principal Machine Learning Scientist

Cambridge, MA · On-site

$128K - $192K/yr

Principal Machine Learning Scientist The Principal Machine Learning Scientist will develop novel machine learning algorithms and workflows for accelerating early-stage drug discovery. In this role ...

Axon

Senior Machine Learning Scientist

Boston, MA · On-site

$99K - $135K/yr

Your Impact We are seeking highly skilled and innovative Machine Learning Scientists to join our AI team, focusing on AI applications (LLM and Computer Vision) in Cloud, Devices and Robotics. As a ...

Axon

Senior Machine Learning Scientist

Boston, MA · On-site

$99K - $135K/yr

Your Impact We are seeking highly skilled and innovative Machine Learning Scientists to join our AI team, focusing on AI applications (LLM and Computer Vision) in Cloud, Devices and Robotics. As a ...

next page

Showing results 1-20

All JobsMachine Learning Scientist JobsMachine Learning Scientist Jobs in Boston, MA

Machine Learning Scientist information

See Boston, MA salary details

$84K

$152.5K

$213.6K

How much do machine learning scientist jobs pay per year?

As of Aug 30, 2026, the average yearly pay for machine learning scientist in Boston, MA is $152,458.00, according to ZipRecruiter salary data. Most workers in this role earn between $132,207.00 and $169,674.00 per year, depending on experience, location, and employer.

What is a machine learning scientist?

A Machine Learning Scientist researches, develops, and applies machine learning models to solve complex problems. They work on designing algorithms, improving model performance, and analyzing large datasets to extract valuable insights. Their role often involves experimenting with new techniques, optimizing existing models, and collaborating with engineers and data scientists to deploy solutions. Machine Learning Scientists typically have expertise in statistics, mathematics, and programming languages like Python. They work in industries such as healthcare, finance, and technology to drive innovation using artificial intelligence.

What does a machine learning scientist do?

A typical day for a Machine Learning Scientist involves collecting and analyzing large datasets, designing and training machine learning models, and evaluating model performance to ensure accuracy and reliability. You'll often collaborate with data engineers, software developers, and domain experts to define project goals, prepare data, and integrate solutions into production systems. Regular team meetings, code reviews, and brainstorming sessions are common, fostering an environment of shared learning and problem-solving. This collaborative structure not only enhances project outcomes but also offers valuable opportunities for continuous professional growth and skill development.

What skills and qualifications are needed to be a machine learning scientist?

To thrive as a Machine Learning Scientist, you need strong skills in mathematics, statistics, programming (typically in Python or R), and a graduate degree in computer science, data science, or a related field. Expertise in machine learning frameworks (such as TensorFlow, PyTorch, or scikit-learn), proficiency with data processing tools, and experience with cloud platforms (like AWS or GCP) are commonly required; certifications in these can be advantageous. Critical thinking, problem-solving, and effective communication are important soft skills for collaborating with cross-functional teams and conveying complex concepts. These abilities enable Machine Learning Scientists to build effective models, deliver actionable insights, and drive innovation within organizations.

Is machine learning a high paying job?

Machine Learning Scientists typically earn high salaries due to the specialized skills required, such as programming, statistical analysis, and experience with tools like Python and TensorFlow. Salaries vary by industry, experience, and location but are generally above average compared to many other tech roles.

What are the most commonly searched types of Machine Learning Scientist jobs in Boston, MA?

The most popular types of Machine Learning Scientist jobs in Boston, MA are:

What are popular job titles related to Machine Learning Scientist jobs in Boston, MA?

For Machine Learning Scientist jobs in Boston, MA, the most frequently searched job titles are:

What job categories do people searching Machine Learning Scientist jobs in Boston, MA look for?

The top searched job categories for Machine Learning Scientist jobs in Boston, MA are:

What cities near Boston, MA are hiring for Machine Learning Scientist jobs?

Cities near Boston, MA with the most Machine Learning Scientist job openings:

Machine Learning Scientist jobs near you
Infographic showing various Machine Learning Scientist job openings in Boston, MA as of August 2026, with employment types broken down into 57% Full Time, and 43% Contract. Highlights an 100% In-person job distribution, with an average salary of $152,458 per year, or $73.3 per hour.

Machine Learning Scientist

Somerville, MA • On-site

Cellarity
Biotechnology Research and Development • 51 - 200 employees
Learn more about Cellarityexternal

Full-time

Medical, Retirement

Posted 3 days ago

New

Job description

What if you could join a rapidly growing company and play a critical role in bringing new medicines to patients through looking at and treating disease in a revolutionary way.
What this position is all about:
We seek a Machine Learning Scientist to join our ML team and lead focused efforts in applying and adapting proprietary foundation models to enable Cellarity's predictive drug discovery platform. As a lead ML Scientist the candidate will develop and apply AI methods to identify novel interventions and targets to accelerate early drug discovery.
This role involves hands-on modeling of high-dimensional biological data, leveraging and fine-tuning state-of-the-art foundation models, while enabling interpretability and biological reasoning. Ideal candidate will have demonstrated application of deep learning and computational biology to biological problems.
The successful candidate will work closely with researchers in biology, chemistry, and omics technology in a collaborative environment.
What you would be responsible for:
  • Model Development
    • Apply, fine-tune, and post-train foundation models (e.g., transformer-based, diffusion, VAE architectures) on single-cell RNA-seq data and other modalities to model disease cellular states
    • Build state-of-the-art perturbation models using multi-modal perturbation data (small molecules, CRISPR, cytokines) and phenotypic data, with emphasis on CRISPR screen data (e.g., Perturb-seq).
    • Develop mechanistic interpretability methods to infer gene networks and regulatory mechanisms via attention, graph-based, and/or causal representation methods, supporting downstream applications such as target identification.
    • Deploy and run inference on generative AI models using proprietary datasets on cloud platforms.
    • Establish clinically relevant benchmarking and evaluation frameworks to assess context generalization and guide model improvements.
    • Stay current with the latest research in foundation models, representation learning (across biology, NLP, vision, and audio), and perturbation modeling.

    Scientific Collaboration
    • Collaborate with interdisciplinary scientists from biology, chemistry, and technology teams to translate research questions into cutting-edge ML solutions.
    • Opportunity to collaborate with and co-develop platform modules alongside other Flagship Pioneering companies.
    • Communicate technical concepts clearly to diverse scientific audiences.

What experiences will you need:
  • PhD in Computer Science, Computational Biology, or related field, OR Master's degree with 3+ years or Master's or Bachelor's degree with 6+ years of relevant ML research experience for drug discovery.
  • Strong foundation in statistics, deep learning and generative AI.
  • Experience with high-dimensional biological data analysis (bulk/single-cell RNA-seq, gene regulatory networks, PPI networks, multi-omics integration).
  • Experience with chemical / CRISPR perturbation screen data (e.g., Perturb-seq), including analysis and modeling.
  • Familiarity with single-cell foundation models (e.g., Geneformer, scGPT, scFoundation) and their downstream applications.
  • Experience applying or fine-tuning pretrained foundation models or deep generative models for downstream biological tasks.
  • Experience with cloud computing (AWS/GCP) and MLOps best practices.
  • Excellent communication skills and ability to work in interdisciplinary teams.

What sets you apart:
  • Experience building agentic AI systems (e.g., LLM-based agents, tool use, multi-step reasoning workflows) for scientific discovery or data analysis.
  • Familiarity with target identification and prioritization in drug discovery.

What it's like to work at Cellarity
At Cellarity, we
  • Push Boundaries: We create a legacy with breakthrough science in service of patients.
  • Inject Energy: We build strengths from different perspectives and tell it like it is
  • Own it: We transcend our job descriptions and relentlessly follow through on our commitments.
  • Go all out: We work quickly and with conviction.

Company Summary: Cellarity is a privately held, clinical-phase drug discovery startup using AI and single-cell omics to develop life-changing medicines that are unreachable by traditional methods of drug discovery. Our pipeline spans multiple exploratory programs across different indications, offering broad opportunities to apply machine learning to diverse disease areas. Cellarity is a product of Flagship Pioneering's venture creation engine, which has conceived and created companies such as Moderna (NASDAQ: MRNA), Generate:Biomedicines, and Lila Sciences.
Cellarity is committed to equal employment opportunity regardless of race, color, ancestry, religion, sex, national origin, sexual orientation, age, citizenship, marital status, disability, gender identity or Veteran status.
Recruitment & Staffing Agencies: Cellarity does not accept unsolicited resumes from any source other than candidates. The submission of unsolicited resumes by recruitment or staffing agencies to Cellarity or its employees is strictly prohibited unless contacted directly by Cellarity's internal Talent Acquisition team. Any resume submitted by an agency in the absence of a signed agreement will automatically become the property of Cellarity, and Cellarity will not owe any referral or other fees with respect thereto.
The salary range for this role is $132,000 - $209,000. Compensation for the role will depend on a number of factors, including a candidate's qualifications, skills, competencies, and experience. Cellarity currently offers healthcare coverage, annual incentive program, retirement benefits and a broad range of other benefits. Compensation and benefits information is based on Cellarity'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 Cellarity, a Flagship Pioneering portfolio company, 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.

Apply