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Spatial Transcriptomics Jobs in San Francisco, CA

Nudge Inc.

Histotechnologist

San Francisco, CA · On-site

Prepare and process samples for spatial omics platforms, including multiplexed protein imaging and spatial transcriptomics, with both RNA- and protein-based tagging approaches * Develop, optimize ...

nudge

Histotechnologist

San Francisco, CA · On-site

Prepare and process samples for spatial omics platforms, including multiplexed protein imaging and spatial transcriptomics, with both RNA- and protein-based tagging approaches * Develop, optimize ...

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All JobsSpatial Transcriptomics JobsSpatial Transcriptomics Jobs in San Francisco, CA

Spatial Transcriptomics information

See San Francisco, CA salary details

$57.7K

$239.7K

$471.3K

How much do spatial transcriptomics jobs pay per year?

As of Aug 28, 2026, the average yearly pay for spatial transcriptomics in San Francisco, CA is $239,720.00, according to ZipRecruiter salary data. Most workers in this role earn between $92,500.00 and $471,300.00 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 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 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 popular job titles related to Spatial Transcriptomics jobs in San Francisco, CA?

For Spatial Transcriptomics jobs in San Francisco, CA, the most frequently searched job titles are:

What job categories do people searching Spatial Transcriptomics jobs in San Francisco, CA look for?

The top searched job categories for Spatial Transcriptomics jobs in San Francisco, CA are:

What cities near San Francisco, CA are hiring for Spatial Transcriptomics jobs?

Cities near San Francisco, CA with the most Spatial Transcriptomics job openings:

Spatial Transcriptomics jobs near you
Infographic showing various Spatial Transcriptomics job openings in San Francisco, CA as of August 2026, with employment types broken down into 100% Full Time. Highlights an 89% In-person, and 11% Remote job distribution, with an average salary of $239,720 per year, or $115.2 per hour.

Histotechnologist

Nudge Inc.

San Francisco, CA • On-site

Other

This job post has expired 3 days ago. Applications are no longer accepted.

Job description

Histotechnologist

At Nudge, our mission is to develop the best technology for interfacing with the brain to improve people's lives. We're starting with an approach that we believe can help the most people the fastest, and also allow us to learn as much about the brain as possible: developing a non-invasive, ultrasound-based device that can stimulate and image the brain at high resolution and depth. This is a vertically integrated effort building cutting-edge hardware, software, and research capabilities to create products that can benefit millions — and eventually billions — of people.

To succeed, we need to assemble world-class teams across everything we do. We hire people who are exceptional at their craft, believe hard things are worth doing, and execute relentlessly — people who expect the highest levels of both rigor and integrity from each other.

About the Role

We're looking for a histotechnologist to own and execute histology workflows at Nudge, focused primarily on mouse and rat brain tissue. You'll be responsible for building the full histology pipeline: perfusion, prosection, embedding, sectioning, staining, and imaging — across both traditional and cutting-edge techniques, to understand the mechanisms of ultrasonic neuromodulation.

As a histotechnologist at Nudge, you will:

  • Perform routine and advanced histological processing of rodent brain tissue, including perfusion, prosection, fixation, embedding (paraffin and OCT), and sectioning via microtome, cryostat, and vibratome
  • Execute standard histological stains (H&E, special stains) and immunohistochemistry using both manual and automated staining platforms
  • Operate and optimize tissue clearing platforms (electrophoretic, solvent-based) for whole-brain and thick-section imaging
  • Prepare cleared tissue for light sheet fluorescence microscopy and volumetric 3D imaging
  • Operate and maintain automated sectioning and tissue processing systems
  • Prepare and process samples for spatial omics platforms, including multiplexed protein imaging and spatial transcriptomics, with both RNA- and protein-based tagging approaches
  • Develop, optimize, and document SOPs for histological workflows, ensuring reproducibility and quality
  • Collaborate with research scientists to adapt tissue processing and staining strategies to specific experimental questions
About You

We are looking for histotechnologists with at least 3 years of industry experience. Regardless of career level, you should have:

  • Hands-on experience in histotechnology, with significant time spent processing rodent brain tissue
  • Proficiency across core histological techniques: microtomy (paraffin, cryo, vibratome), tissue embedding, H&E staining, and immunohistochemistry
  • Experience with at least one tissue clearing method and associated imaging modalities (light sheet microscopy)
  • Familiarity with automated staining and sectioning platforms
  • HT(ASCP) certification or equivalent training; Bachelor's degree in biology, neuroscience, or a related field preferred
  • High integrity and strong professional judgment

Apply