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Transcriptomics Jobs in San Jose, CA (NOW HIRING)

Transcripta Bio

Computational Biologist

Palo Alto, CA · On-site

Integrate data across multiple experimental modalities (transcriptomics, imaging, protein measurements) to build a coherent picture of biology and prioritize therapeutic hypotheses. * Partner with ...

Valius Sciences

Computational Biologist

San Francisco, CA · On-site

$125K - $185K/yr

This coming year, we're on track to scale our patient volume significantly, all while bringing new diagnostic modalities (e.g., single-cell transcriptomics) and analytical approaches into clinical ...

Aequor

Associate Scientist

South San Francisco, CA

Experience with single-cell sequencing and spatial transcriptomics is also valuable. Histology experience is preferred but is considered more flexible than NGS experience. The candidate should at ...

Transcripta Bio

Scientist, Drug Discovery

Palo Alto, CA · On-site

... transcriptomics, causal human genetics, and pre-validated chemistry to identify and advance drug candidates with a structural edge over conventional approaches. We are looking for a Scientist to ...

Aequor

Associate Scientist

South San Francisco, CA

... transcriptomics, proteomics, imaging, and cytometry-based assays • Make actionable decisions as a technical expert • Collaborate closely with other team members on experimental design and ...

Vivodyne

Senior Bioinformatician

San Francisco, CA · On-site

We are expanding our capabilities to generate high-throughput -omics data across automated human tissue models, with a primary focus on single-cell and bulk transcriptomics, secretomics, and ...

MyOme

Scientist, Computational Biology

Menlo Park, CA

$130K - $150K/yr

Bulk/single-cell transcriptomics * Epidemiological & Statistical Rigor: Strong background in observational study design, association testing, confounding control, and time-to-event modeling on ...

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All JobsTranscriptomics JobsTranscriptomics Jobs in San Jose, CA

Transcriptomics information

See San Jose, CA salary details

$57.4K

$238.5K

$468.8K

How much do transcriptomics jobs pay per year?

As of Aug 2, 2026, the average yearly pay for transcriptomics in San Jose, CA is $238,462.00, according to ZipRecruiter salary data. Most workers in this role earn between $92,000.00 and $468,800.00 per year, depending on experience, location, and employer.

What are the key skills and qualifications needed to thrive as a Transcriptomics Scientist, and why are they important?

To thrive as a Transcriptomics Scientist, you need a strong background in molecular biology, genomics, and bioinformatics, typically supported by an advanced degree in a relevant field. Familiarity with next-generation sequencing (NGS) platforms, RNA-seq analysis pipelines, and programming languages like R or Python is essential. Attention to detail, problem-solving abilities, and effective communication skills set outstanding candidates apart. These competencies are vital for generating accurate transcriptomic data, interpreting complex results, and collaborating within multidisciplinary research teams.

What does transcriptomics do?

Transcriptomics is a field within molecular biology that studies the complete set of RNA transcripts produced by a genome under specific conditions. Professionals in this area analyze gene expression patterns using tools like RNA sequencing to understand cellular functions and disease mechanisms.

What biology jobs pay over $100k?

In the field of transcriptomics, roles such as senior research scientist, bioinformatics director, and molecular biology manager often have salaries exceeding $100,000 annually. These positions typically require advanced degrees, extensive experience, and skills in data analysis, programming, and laboratory techniques.

What is transcriptomics?

Transcriptomics is the study of the complete set of RNA transcripts produced by the genome under specific circumstances or in a specific cell. It provides insights into gene expression patterns, how genes are regulated, and how cells respond to various conditions. By analyzing the transcriptome, researchers can better understand biological processes, disease mechanisms, and identify potential targets for therapy. Technologies such as RNA sequencing (RNA-seq) are commonly used in transcriptomics research.

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

Professionals in transcriptomics frequently encounter challenges such as handling large and complex datasets, ensuring data quality, and staying current with rapidly evolving analytical tools and technologies. Working closely with bioinformaticians and statisticians is essential for effective data analysis and interpretation. Additionally, clear communication and collaboration with wet-lab biologists and clinicians help bridge the gap between raw data and meaningful biological insights. Regular training and professional development can help transcriptomics professionals stay updated with the latest best practices and software advancements.

What is the highest paying job in genetics?

In genetics, roles such as genetic counselors, research directors, and senior clinical geneticists tend to have the highest salaries, often exceeding six figures annually. Positions requiring advanced degrees, specialized skills, and leadership responsibilities typically offer the highest compensation in the field.

What is the highest paying job in bioinformatics?

In bioinformatics, senior roles such as bioinformatics directors, principal scientists, or lead data scientists tend to have the highest salaries, often exceeding $150,000 annually. These positions typically require advanced skills in programming, data analysis, and experience with large-scale genomic or transcriptomic data, along with leadership responsibilities.

What is the difference between Transcriptomics vs Bioinformatics?

AspectTranscriptomicsBioinformatics
Required credentialsBachelor's or Master's in Biology, Genetics, or related fields; experience with sequencing technologiesBachelor's or Master's in Computer Science, Bioinformatics, or related fields; programming skills
Work environmentLaboratories, research institutions, biotech companiesResearch labs, biotech firms, academic institutions, data analysis centers
Industry usageGenomics, molecular biology, medical researchData analysis, software development, computational biology

While both Transcriptomics and Bioinformatics involve analyzing biological data, Transcriptomics focuses on studying gene expression profiles using sequencing technologies, whereas Bioinformatics encompasses a broader range of computational methods to analyze various biological datasets. Professionals in both fields often collaborate but have distinct skill sets and work environments.

What are popular job titles related to Transcriptomics jobs in San Jose, CA? For Transcriptomics jobs in San Jose, CA, the most frequently searched job titles are:
What job categories do people searching Transcriptomics jobs in San Jose, CA look for? The top searched job categories for Transcriptomics jobs in San Jose, CA are:
What cities near San Jose, CA are hiring for Transcriptomics jobs? Cities near San Jose, CA with the most Transcriptomics job openings:
Transcriptomics jobs near you
Infographic showing various Transcriptomics job openings in San Jose, CA as of June 2026, with employment types broken down into 95% Full Time, 3% Part Time, and 2% Contract. Highlights an 95% Physical, 2% Hybrid, and 3% Remote job distribution, with an average salary of $238,462 per year, or $114.6 per hour.

Computational Biologist

Transcripta Bio

Palo Alto, CA • On-site

Full-time

Re-posted 8 days ago

Job description

About Transcripta Bio
Transcripta Bio is a preclinical-stage AI drug discovery company pioneering a patient-first approach to therapeutics. Headquartered in Palo Alto, CA, we have built a proprietary closed-loop discovery engine - comprising our Disease Signature Atlas, Drug-Gene Atlas, and Conductor AI platform - that integrates single-cell patient transcriptomics, causal human genetics, and pre-validated chemistry to identify and advance drug candidates with a structural edge over conventional approaches.
WHAT YOU'LL DO
  • Develop, maintain, and optimize reproducible bioinformatics pipelines for processing, QC, and analysis of high-throughput datasets, including bulk RNA-seq, single-cell RNA-seq, and high-content imaging data.
  • Analyze data from drug perturbation screens to identify transcriptomic signatures, compound-gene associations, and patterns of drug response across disease-relevant cell models.
  • Integrate data across multiple experimental modalities (transcriptomics, imaging, protein measurements) to build a coherent picture of biology and prioritize therapeutic hypotheses.
  • Partner with wet lab scientists to help design experiments, define data standards, troubleshoot data quality issues, and ensure clean handoffs between experimental and computational workflows.
  • Contribute to the curation and expansion of the Drug-Gene Atlas: ensure that data inputs are well characterized, analysis methods are calibrated, and outputs are interpretable and reliable.
  • Communicate findings clearly through reports, visualizations, and presentations to both computational and non-computational colleagues.
  • Stay current with advances in transcriptomics, single-cell methods, and computational biology; evaluate and adopt new tools and approaches where they add value.
  • Contribute to code review, documentation, and best practices as the team grows.

WHAT YOU'LL BRING
  • PhD in Bioinformatics, Computational Biology, Genomics, or a related field with 3+ years of relevant experience in industry.
  • Extensive hands-on experience processing and analyzing bulk and/or single-cell RNA-seq data, from raw reads through QC, normalization, dimensionality reduction, clustering, and differential expression.
  • Experience in relevant scientific packages (e.g., scanpy, pandas, numpy, DESeq2, ggplot2) and comfort working in a Linux/command-line environment. Strong programming proficiency in Python and/or R is a plus
  • Experience building and running reproducible workflows using tools such as Snakemake, Nextflow, or equivalent; familiarity with version control (Git) and best practices for collaborative code development.
  • Exposure to high-throughput or perturbational screening datasets (chemical, genetic, or combined) is highly desirable.
  • A biologically grounded mindset: you approach data with mechanistic questions in mind, not just statistical outputs.

NICE TO HAVE
  • Experience analyzing data from functional genomics assays (e.g., ATAC-seq, ChIP-seq, perturb-seq, or pooled CRISPR screens).
  • Familiarity with spatial transcriptomics or multimodal data integration approaches.
  • Experience working with or alongside ML/AI teams; familiarity with applying machine learning methods to biological data.
  • Background in rare genetic disease, neurodegeneration, or other genetically defined disease areas.
  • Experience in cloud-based compute environments (AWS, GCP, or equivalent)

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