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Spatial Transcriptomics Jobs in Boston, MA (NOW HIRING)

Clinical Data Manager

Burlington, MA · On-site

$145K - $160K/yr

We combine cutting-edge technologies including optogenetics, in vivo physiology, and spatial transcriptomics to identify novel drug targets and develop effective therapies to address psychiatric ...

Research Lab Tech I

Charlestown, MA · On-site

$21 - $29.01/hr

Experience with single-cell RNA-seq, ATAC-seq, WGS, or spatial transcriptomics platforms. * Familiarity with handling and processing human tissues. * Prior exposure to next-generation sequencing ...

... spatial transcriptomics, methylation, imaging) * Credible as a thought partner with senior R&D leaders on patient-centered prediction topics; able to engage across both scientific and business ...

... spatial transcriptomics, methylation, imaging) * Credible as a thought partner with senior R&D leaders on patient-centered prediction topics; able to engage across both scientific and business ...

Showing results 21-40

Spatial Transcriptomics information

See Boston, MA salary details

$53.2K

$221K

$434.6K

How much do spatial transcriptomics jobs pay per year?

As of Aug 7, 2026, the average yearly pay for spatial transcriptomics in Boston, MA is $221,048.00, according to ZipRecruiter salary data. Most workers in this role earn between $85,300.00 and $434,600.00 per year, depending on experience, location, and employer.

What is spatial transcriptomics?

Spatial transcriptomics is an advanced technique that allows scientists to measure gene expression within the spatial context of tissue samples. Unlike traditional RNA sequencing, which loses information about where each gene is expressed, spatial transcriptomics preserves the physical location of gene activity in tissues. This helps researchers better understand how cells function within their native environments and interact with neighboring cells, which is especially valuable in fields like cancer research, neuroscience, and developmental biology. The method combines microscopy, molecular biology, and computational analysis to produce detailed maps of gene expression.

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

Professionals in spatial transcriptomics often encounter challenges related to handling large, complex datasets and integrating spatial information with gene expression data. Ensuring high-quality sample preparation and mastering advanced imaging or sequencing technologies are also frequent hurdles. These challenges can be addressed by collaborating closely with multidisciplinary teams—including bioinformaticians, molecular biologists, and imaging specialists—and staying up-to-date with the latest software tools and protocols. Continuous learning and effective communication within the team are key to overcoming technical and analytical obstacles in this rapidly evolving field.

What are the key skills and qualifications needed to thrive as a spatial transcriptomics scientist?

To thrive as a Spatial Transcriptomics Scientist, you need a strong background in molecular biology, genomics, and bioinformatics, typically supported by an advanced degree in a life science field. Familiarity with spatial transcriptomics platforms (such as 10x Genomics Visium), next-generation sequencing (NGS) technologies, and data analysis tools like R or Python is essential. Strong problem-solving skills, attention to detail, and effective communication are important soft skills for collaborating on interdisciplinary research projects. These skills and qualities are crucial for generating high-quality spatial gene expression data and translating findings into meaningful biological insights.
What are popular job titles related to Spatial Transcriptomics jobs in Boston, MA? For Spatial Transcriptomics jobs in Boston, MA, the most frequently searched job titles are:
What cities near Boston, MA are hiring for Spatial Transcriptomics jobs? Cities near Boston, MA with the most Spatial Transcriptomics job openings:
Infographic showing various Spatial Transcriptomics job openings in Boston, MA as of August 2026, with employment types broken down into 72% Full Time, 24% Part Time, 1% Temporary, and 3% Contract. Highlights an 72% Physical, 2% Hybrid, and 26% Remote job distribution, with an average salary of $221,048 per year, or $106.3 per hour.

AI Scientist - Image Analysis & Digital Pathology

Novartis Pharmaceuticals Corporation

Cambridge, MA

Full-time

Retirement

Posted 10 days ago


Job description

Band

Level 4


Job Description Summary

Location: Cambridge or Basel
Onsite
Relocation is offered for this role.
#LI-Onsite
The Oncology Data Science team in Biomedical Research at Novartis works at the intersection of oncology drug discovery, computational biology, AI/ML, and data engineering. We are seeking an enthusiastic AI/ML scientist with deep expertise in digital pathology and a strong curiosity for translational research to join the AI & Innovation Team.
This role will apply advanced AI approaches to generate insights from complex imaging datasets and support our oncology drug discovery programs.


Job Description

Key responsibilities:

  • Develop and apply AI / deep learning approaches to extract insights from digital pathology imaging datasets (e.g., H&E, IHC, mIF, Spatial transcriptomics).
  • Work with foundational models, including pre-trained, self-supervised, multi-purpose, and multi-modal models to advance generative AI applications in drug discovery.
  • Support imaging biomarker development efforts by analyzing pathology imaging data and collaborate with pathologists and translational teams to interpret image-derived biomarkers and biological findings.
  • Contribute to evaluation, validation, and benchmarking of image analysis algorithms and workflows.
  • Perform tissue segmentation, cell phenotyping, feature extraction, and spatial analysis using state-of-the-art computational approaches.
  • Stay current with advances in computational pathology, AI/ML, and spatial biology technologies; contribute to scientific publications; and present results at internal and external scientific conferences.

Requirements:

  • Ph.D.in Machine Learning, Computer Science, Applied Mathematics, Computational Biology or related field. Candidates with MSc in Machine Learning, Computer Science, Applied Mathematics, Computational Biology or related field, with 4+ years of relevant industry experience will also be considered.
  • Strong experience analyzing pathology imaging modalities including H&E, IHC, multiplex IF, and / or spatial transcriptomics data.
  • Understanding of machine learning methods for segmentation, classification, detection, and representation learning.
  • Experience in one or more of the following areas: generative AI, digital pathology foundation models, geometric deep learning and / or multi-modal learning.
  • Excellent programming skills and proficiency in deep learning frameworks such as PyTorch, with openness to learning new tools and technologies.
  • Strong communication and collaboration skills with the ability to communicate complex data insights and recommendations to cross-functional teams.
  • Strong research skills, evidenced by publications in leading scientific journals and / or conference presentations.

Rewards

At Novartis,we'recommitted to reimagining medicine together - and rewarding the people who make it happen.

The rewards of being part of our team go far beyond base pay and incentives.We also offer a variety of competitive benefits inkindto help you thrive personally and professionally, such as insurance plans, retirement plans, wellbeingresourcesand global recognition programs. In addition, we provide flexible and hybrid working options, where possible, anda minimum of14 weekspaid parental leave.

Expected Annual Base Salary Range for role:

  • US: 126,000.00 - 234,000.00 USD Annual

The salary offered isdeterminedbased on gender-neutralobjectives, such as relevant skills,competenciesand experiencein accordance withthe Novartis pay setting policy and upon joining Novartis will be reviewed periodically.

In addition to your base salary, you may be eligible for a performance-based bonus depending on certain performance parameters. Further details will be provided during the application process.

Pay equity is a fundamental principle of our employment policy and reflects our commitment to create a diverse,equitableand inclusive environment that treats all employees with dignity and respect, as outlined in our Code of Ethics.

Readourbrochureto learn more about our global total rewards offering:https://www.novartis.com/sites/novartis_com/files/novartis-life-handbook.pdf

Note: Benefits and compensation may vary by country and are subject to local legal requirements, including provisions of collective bargaining agreements where applicable. A full overview of your compensation package, including any relevant collective bargaining agreement details applicable to your role based on your employment location and Novartis employer entity, will be communicated separately to you during the applicationprocess.

Why Novartis:Helping people with disease and their families takes more than innovative science. It takes a community of smart, passionate people like you. Collaborating,supportingand inspiring each other. Combining to achieve breakthroughs that change patients' lives. Ready to create a brighter future together?https://www.novartis.com/about/strategy/people-and-culture

Benefits and Rewards:Read our handbook to learn about all the wayswe'llhelp you thrive personally and professionally:https://www.novartis.com/careers/benefits-rewards


EEO Statement:

The Novartis Group of Companies are Equal Opportunity Employers. We do not discriminate in recruitment, hiring, training, promotion or other employment practices for reasons of race, color, religion, gender, national origin, age, sexual orientation, gender identity or expression, marital or veteran status, disability, or any other legally protected status. We strive to create an inclusive workplace that cultivates bold innovation through collaboration and empowers our people to unleash their full potential.


Accessibility and reasonable accommodations

The Novartis Group of Companies are committed to working with and providing reasonable accommodation to individuals with disabilities. If, because of a medical condition or disability, you need a reasonable accommodation for any part of the application process, or in order to perform the essential functions of a position, please send an e-mail to tas.nacomms@novartis.com call +1 (877)395-2339 and let us know the nature of your request and your contact information. Please include the job requisition number in your message.
https://www.novartis.com/careers/careers-research/notice-all-applicants-us-job-openings


Salary Range

$126,000.00 - $234,000.00


Skills Desired

Artificial Intelligence (AI), Biostatistics, Change Management, Curious Mindset, Data Governance, Data Literacy, Data Quality, Data Science, Data Visualization, Deep Learning, Graph Algorithms, Learning Agility, Machine Learning (ML), Machine Learning Algorithms, Python (Programming Language), Stakeholder Engagement, Statistical Analysis, Time Series Analysis