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Bioinformatics Programmer Analyst Jobs in Newark, CA

Mithrl

Bioinformatics Engineer, Pipelines

San Francisco, CA · On-site

$150K - $200K/yr

Scientists ask questions in natural language, and Mithrl responds with analysis, novel targets ... ABOUT THE ROLE We are looking for a Lead Bioinformatics Pipeline Engineer to build and scale Mithrl ...

Mithrl

Bioinformatics Engineer, Pipelines

San Francisco, CA · On-site

$150K - $200K/yr

Scientists ask questions in natural language, and Mithrl responds with analysis, novel targets ... ABOUT THE ROLE We are looking for a Lead Bioinformatics Pipeline Engineer to build and scale Mithrl ...

Roche

Senior Bioinformatics Scientist

Pleasanton, CA · On-site

$167/hr

You have expertise in DNA/RNA sequencing data analysis and interpretation. * You have a strong ... You are proficient in programming skills in R and/or Python, with experience working in a ...

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Bioinformatics Programmer Analyst information

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How much do bioinformatics programmer analyst jobs pay per hour?

As of Sep 2, 2026, the average hourly pay for bioinformatics programmer analyst in Newark, CA is $52.28, according to ZipRecruiter salary data. Most workers in this role earn between $40.58 and $63.56 per hour, depending on experience, location, and employer.

What is a bioinformatics programmer analyst?

A Bioinformatics Programmer Analyst is a professional who combines knowledge of biology, computer science, and statistics to manage, analyze, and interpret complex biological data, often using programming and software development skills. They typically work with large datasets such as genomic sequences, gene expression profiles, or proteomics data to derive meaningful insights for research or clinical applications. Their role often involves developing software tools, writing scripts for data analysis, and collaborating with biologists and other scientists to solve research problems. Bioinformatics Programmer Analysts are essential in fields like genomics, pharmaceutical research, and personalized medicine.

What are the key skills and qualifications needed to thrive as a bioinformatics programmer analyst?

To thrive as a Bioinformatics Programmer Analyst, you need strong programming skills (such as Python, R, or Perl), a background in biology or bioinformatics, and typically a bachelor's or master's degree in a relevant field. Familiarity with bioinformatics tools, databases (like NCBI, Ensembl), and experience using Linux environments and version control systems (like Git) are essential. Analytical thinking, problem-solving abilities, and effective communication are crucial soft skills for interpreting data and collaborating with research teams. These competencies are vital for accurately analyzing biological data and delivering actionable insights in research or clinical settings.

What are some common challenges faced by bioinformatics programmer analysts when integrating new data types into existing pipelines?

Bioinformatics Programmer Analysts often encounter challenges such as data heterogeneity, inconsistent formats, and varying quality when integrating new data types into established analysis pipelines. Addressing these issues requires careful data preprocessing, validation, and sometimes developing custom scripts or modules to ensure compatibility. Collaboration with biologists and data scientists is essential to understand the context of the new data and to tailor solutions that maintain the reliability and reproducibility of results. Staying adaptable and up-to-date with evolving bioinformatics tools and standards also helps in overcoming these integration challenges.

What is the difference between Bioinformatics Programmer Analyst vs Bioinformatics Data Scientist?

AspectBioinformatics Programmer AnalystBioinformatics Data Scientist
Required CredentialsBachelor's in Bioinformatics, Computer Science, or related field; programming skillsBachelor's or Master's in Bioinformatics, Data Science, or related; strong statistical and programming skills
Work EnvironmentResearch labs, biotech companies, healthcare institutionsResearch institutions, biotech firms, healthcare analytics
Employer & Industry UsageUsed in biotech, pharma, healthcare for data analysis and software development

The Bioinformatics Programmer Analyst primarily focuses on developing software tools and analyzing biological data using programming skills. In contrast, the Bioinformatics Data Scientist emphasizes statistical analysis and data modeling to interpret complex biological datasets. Both roles require strong programming knowledge and are common in biotech and healthcare industries, but their core responsibilities differ in software development versus data analysis.

What are popular job titles related to Bioinformatics Programmer Analyst jobs in Newark, CA?

For Bioinformatics Programmer Analyst jobs in Newark, CA, the most frequently searched job titles are:

What job categories do people searching Bioinformatics Programmer Analyst jobs in Newark, CA look for?

The top searched job categories for Bioinformatics Programmer Analyst jobs in Newark, CA are:

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Cities near Newark, CA with the most Bioinformatics Programmer Analyst job openings:

Bioinformatics Programmer Analyst jobs near you
Infographic showing various Bioinformatics Programmer Analyst job openings in Newark, CA as of August 2026, with employment types broken down into 1% Internship, 83% Full Time, 10% Part Time, and 6% Contract. Highlights an 81% Physical, 9% Hybrid, and 10% Remote job distribution, with an average salary of $108,734 per year, or $52.3 per hour.

Bioinformatics Engineer, Pipelines

Mithrl

San Francisco, CA • On-site

$150K - $200K/yr

Full-time

Medical, Dental, Vision, Retirement

This job post has expired 2 days ago. Applications are no longer accepted.

Job description

ABOUT MITHRL
We imagine a world where new medicines reach patients in months, not years, and where scientific breakthroughs happen at the speed of thought.
Mithrl is building the world's first commercially available AI Co-Scientist. It is a discovery engine that transforms messy biological data into real insights in minutes. Scientists ask questions in natural language, and Mithrl responds with analysis, novel targets, hypotheses, and patent-ready reports.
Our traction speaks for itself:
  • 12X year-over-year revenue growth
  • Trusted by leading biotechs and big pharma across three continents
  • Driving real breakthroughs from target discovery to patient outcomes.

ABOUT THE ROLE
We are looking for a Lead Bioinformatics Pipeline Engineer to build and scale Mithrl's multi modal scientific processing pipelines. You will own the workflows that transform raw biological data into clean, reproducible outputs that power Mithrl's AI Co-Scientist. These workflows include microarray, imaging, spatial transcriptomics, genomics, epigenomics, flow cytometry, and more.
This role sits at the center of our technical stack. You will architect Nextflow and nf-core style pipelines, implement modality-specific validation and QC layers, and collaborate with the Tabular Data Team and Knowledge Curation Team to ensure downstream data harmonization, variable ID mapping, and schema alignment. Your work ensures that scientists can ask questions and receive accurate data-backed answers instantly.
If you enjoy building robust scientific workflows and want to work on high impact problems, you will thrive here.
WHAT YOU WILL DO
  • Design and maintain production grade bioinformatics pipelines for a wide range of data modalities, including microarray, cell painting, WGS and WES, spatial transcriptomics, flow cytometry, ATAC-seq, and methyl-seq
  • Build workflows using Nextflow, nf-core modules, or similar engines with a focus on reproducibility, validation, and scalability
  • Implement quality control, validation, and provenance tracking for all supported modalities
  • Collaborate with the Tabular Data Team to ensure pipeline outputs map cleanly into Mithrl's internal schemas, including variable ID coercions, metadata normalization, and feature name harmonization
  • Work with the Knowledge Curation Team to align outputs with reference genomes, annotations, and biological ontologies
  • Produce structured output artifacts so users can download processed data and supporting metadata directly through the platform

WHAT YOU BRING
Required Qualifications
  • 6 to 8 years of experience in bioinformatics workflow engineering or computational biology
  • Strong experience with Nextflow, nf-core, WDL, CWL, Snakemake, or similar workflow systems
  • Proficiency in Python or R for data processing, QC, and pipeline logic
  • Hands-on experience building pipelines for multiple biological data types, including genomics, single cell, imaging, flow cytometry, spatial data, or epigenomics
  • Ability to design pipelines that are reproducible and containerized using Docker or Singularity
  • Strong understanding of secondary and tertiary data layers and how they integrate with downstream analysis systems
  • Experience integrating pipeline outputs with data stores, schemas, or ML-ready formats

Nice to Have
  • Experience executing pipelines in cloud environments such as AWS Batch, ECS, Tower, or Nextflow Cloud
  • Experience with imaging workflows such as CellProfiler, DeepCell, or Squidpy
  • Familiarity with genomic reference databases, annotation formats, and biological ontologies
  • Previous work in a tech bio startup, biotech R&D group, or scientific software company

WHAT YOU WILL LOVE AT MITHRL
  • You will build the core pipelines that transform raw biological data into insights used by the AI Co-Scientist
  • Team: Join a tight-knit, talent-dense team of engineers, scientists, and builders
  • Culture: We value consistency, clarity, and hard work. We solve hard problems through focused daily execution
  • Speed: We ship fast (2x/week) and improve continuously based on real user feedback
  • Location: Beautiful SF office with a high-energy, in-person culture
  • Benefits: Comprehensive PPO health coverage through Anthem (medical, dental, and vision) + 401(k) with top-tier plans

We encourage you to apply even if you do not believe you meet every single qualification. Not all strong candidates will meet every single qualification as listed. Research shows that people who identify as being from underrepresented groups are more prone to experiencing imposter syndrome and doubting the strength of their candidacy, so we urge you not to exclude yourself prematurely and to submit an application if you're interested in this work. We think AI systems like the ones we're building have enormous social and ethical implications. We think this makes representation even more important, and we strive to include a range of diverse perspectives on our team.

Apply