Senior Bioinformatics Developer Job at Saphetor

Senior Bioinformatics Scientist

Job Advert: Senior Bioinformatics Scientist. Our client is an emerging leader wi...

Location

United States , San Francisco

Salary:

170000.00 - 190000.00 USD / Year

Signify Technology

Expiration Date

Until further notice

Requirements

PhD in Biological Sciences, Bioinformatics, Computational Biology, or related field, with 3+ years of experience developing production-level bioinformatics pipelines
Deep expertise in analyzing bulk/single-cell RNAseq data and performing differential gene expression using state-of-the-art tools
Significant experience building production-level Snakemake (or Nextflow) pipelines, with local and cloud-based deployments
Strong knowledge of sequence analysis (alignment, assembly) and molecular biology, with experience in Oxford Nanopore and Illumina sequencing
Proficiency in Python (numpy, pandas, Jupyter, Biopython) and package management (e.g., Conda)
Hands-on experience with Docker, Apptainer, or Singularity for containerized workflows
Expertise in Git/GitHub and Linux shell scripting for version control and automation
Proficiency in developing intuitive web tools for bioinformatics reporting (e.g., R Shiny, Streamlit)
Familiarity with public genomic data repositories (e.g., NCBI, Ensembl) and large-scale genomic data processing
Strong communication skills and ability to write clean, maintainable, production-ready code

Job Responsibility

Designing and optimizing high-performance bioinformatics pipelines for processing thousands of daily samples, leveraging tools like Snakemake and cloud deployments
Innovating sequence analysis workflows for bulk/single-cell RNAseq, differential gene expression, and large-scale genomics, ensuring robust and scalable solutions
Troubleshooting complex sequencing data challenges, from biological artifacts to platform-specific issues, to ensure reliable outputs
Developing intuitive web tools (e.g., Streamlit, R Shiny) and data visualizations to transform raw bioinformatics data into actionable insights
Providing thought leadership and mentoring junior team members, fostering a culture of innovation and collaboration
Staying ahead of industry trends, integrating emerging bioinformatics tools to enhance our offerings for biopharma and research clients

What we offer

Competitive Compensation: Highly competitive remuneration
Generous Time Off: 4 weeks paid time off + 10 paid holidays
Comprehensive Health Coverage: Health, dental, and vision insurance, plus life insurance and mental health coverage
Retirement and Wellness: 401(k) with matching, Health Advocate services, and gym membership
Impactful Work: Contribute directly to accelerating biotech research, supporting novel therapies and sustainability
Innovative Environment: Work with cutting-edge tools (e.g., Snakemake, Streamlit, AWS) and collaborate with top-tier researchers
Supportive Culture: Join a passionate, inclusive team that values creativity, mentorship, and professional growth

Fulltime

Senior C++ Developer

VarSome.com is the world’s leading website for professional human genetics. VarS...

Location

Greece , Athens

Salary:

Not provided

Saphetor

Expiration Date

Until further notice

Requirements

At least 4 years of commercial C++ development experience, using templates, STL containers, smart pointers, memory management and multithreading
BSc and/or MSc degree in Computer Science, Engineering or Mathematics
Hands-on experience with relational databases, optimizing queries and table schemas for optimal performance
Good experience with distributed cloud-based computing and big-data systems
Familiarity with agile methodologies and the ability to adapt to a fast-paced development environment, actively taking in code reviews, scrums, technical discussions etc
Very good understanding of fundamental application design principles and object-oriented design, in order to build & maintain a large high-quality code base
Excellent written & oral communication skills in English

Job Responsibility

Develop our core C++ applications and library for importing and analyzing genetic data
Write reusable, testable, and efficient code, including unit & regression tests
Take complete ownership of projects (ranging from a few days to a month) to deliver a working end-to-end implementation, including unit tests & testing
Optimize & architect our platform for maximum speed, high availability and scalability
Maintain & improve our internal high-performance clinical annotation tools and the custom databases built, optimized for genetics
Contribute to the documentation of software architecture, design and implementation details

What we offer

A position in a fascinating healthcare growth domain, at the cutting edge of technology and research
A competitive compensation package combined with additional benefits
Endless learning opportunities, while transferring new technologies from academics to clinical practice all over the world

Fulltime

Senior Bioinformatics Scientist

We are looking for a Senior Bioinformatics Scientist to join a fast growing team...

Location

United States , Menlo Park

Salary:

156060.00 - 176868.00 USD / Year

BillionToOne

Expiration Date

Until further notice

Requirements

PhD in Bioinformatics, Computational Biology, Computer Science, Bioengineering, Physics or related fields
2+ years of experience developing robust and scalable bioinformatics pipelines
2+ years of experience analyzing NGS data
Fluency in Python
Experience with Linux environment, GitHub and AWS
Excellent communication and presentation skills, ability to work across functional teams and with non-experts

Job Responsibility

Develop sophisticated and robust NGS analysis pipelines capable of processing tens of thousands of samples
Develop tests and test frameworks for NGS pipelines
Analyze and troubleshoot clinical NGS data
Analyze assay performance and contribute to publications that demonstrate the clinical validity and utility of our tests
Design new quality metrics and processes for clinical molecular diagnostic assays
Collaborate with R&D scientists to generate new scientific insights
Communicate assay performance and capabilities to clinical personnel at weekly meetings and to other non-clinical stakeholders

What we offer

Working alongside brilliant, kind, passionate and dedicated colleagues, in an empowering environment, toward a global vision, striving for a future in which transformative molecular diagnostics can help millions of patients
Open, transparent culture that includes weekly Town Hall meetings
The ability to indirectly or directly change the lives of hundreds of thousands patients
Multiple medical benefit options
employee premiums paid 100% of select plans, dependents covered up to 80%
Extremely generous Family Bonding Leave for new parents (16 weeks, paid at 100%)
Supplemental fertility benefits coverage
Retirement savings program including a 4% Company match
Increase paid time off with increased tenure
Latest and greatest hardware (laptop, lab equipment, facilities)

Fulltime

Senior Bioinformatician

Location

Salary:

Not provided

Genome International Corp

Expiration Date

Until further notice

Requirements

4+ years of bioinformatics programming experience in an industry or academic setting
Demonstrated experience as scientific programmer
Very strong in Perl, Python, JAVA, C, C++, BioPerl, and shell in Linux environment
Experience in MySQL database design and development
Experience in web-based MVC application framework
Proficiency in object-oriented design and development
Experience in statistical programming using R preferably in genomics or genetic
Knowledge in Molecular biology and Biostatistics (preferable)

Job Responsibility

Collaborate with biologists to understand and document analytical and data management requirements
Clinical genetic data analysis and reporting
Conduct research, lead development of bioinformatics software tools and curated databases
Develop coherent and integrated software and databases for biological problems
Develop data-analysis strategies, write algorithms, and deploy computational tools for the exploration of large datasets
Develop bioinformatics pipelines for analyzing NGS and metabolomics data
Write programs to generate genome-wide datasets for statistical genetics
Analyze, review and modify programs to increase operating efficiency or to adapt to new requirements
Work with various technologies to develop software solutions as part of research infrastructure
Assist, collaborate, and consult with internal/external researchers on analyses of NGS data

Senior Scientist – Research Computational Biology

Join Amgen’s Mission of Serving Patients. The ARIA Computational Biology team is...

Location

United States

Salary:

143320.00 - 174539.00 USD / Year

Amgen

Expiration Date

Until further notice

Requirements

Doctorate in computational biology, bioinformatics, data science, or a related discipline [and relevant post-doc where applicable]
Master’s degree and 3 years of relevant research experience
Bachelor’s degree and 5 years of relevant research experience
Strong programming skills (Python, R, Linux/Unix), familiarity with cloud computing environments, HPC, and collaborative coding practices (e.g., Git)
Track record of designing and implementing creative and holistic computational strategies to address challenging research questions
Demonstrated expertise in the analysis and interpretation of single cell omics data
Excellent presentation and communication skills to convey complex findings to diverse audiences
Self-starter with a collaborative mentality and a drive for continuous growth

Job Responsibility

Extracting biological insight from complex multi-modal omics and screening data to characterize disease endotypes and mechanisms, identify novel targets and biomarkers, and test therapeutic hypotheses
Developing and leveraging methods/platforms to discover, prioritize, and validate targets across diverse diseases and therapeutic modalities
Innovative research in close partnership with Amgen therapeutic area scientists, spanning both internal pipeline programs and external partnerships
Partnering with our data science and information systems teams to incorporate tools and analyses developed within ARIA Computational Biology into integrated R&D platforms

What we offer

A comprehensive employee benefits package, including a Retirement and Savings Plan with generous company contributions, group medical, dental and vision coverage, life and disability insurance, and flexible spending accounts
A discretionary annual bonus program, or for field sales representatives, a sales-based incentive plan
Stock-based long-term incentives
Award-winning time-off plans
Flexible work models, including remote and hybrid work arrangements, where possible

Fulltime

Senior Bioinformatician - Genetics

The Sr. Bioinformatician plays a critical role in supporting clinical and resear...

Location

United States , San Diego

Salary:

119000.00 - 178000.00 USD / Year

Exact Sciences

Expiration Date

Until further notice

Requirements

PhD in bioinformatics, computational biology, computer science, or field as outlined in the essential duties
or Master’s degree plus 4 years of experience in lieu of a PhD
or Bachelor’s degree plus 6 years of experience in lieu of a PhD
5+ years of experience in bioinformatics and/or bioinformatics operations in industry or academia
3+ years in a regulated environment (e.g., medical device, IVD, biotech, or pharma)
Proficiency in Linux-based HPC or cloud computing environments
Proficiency writing custom code with the ability to adapt to commonly used languages
Expertise in NGS and genomics
Experience with statistical software (e.g., R, JMP)
Strong documentation, communication, and problem-solving skills

Job Responsibility

Lead and execute complex bioinformatics analyses across multiple platforms and studies
Diagnose and resolve pipeline errors
troubleshoot QC issues and sequencing anomalies
Develop and maintain tools for variant calling, annotation, and artifact detection, incorporating new approaches and technologies
Review and interpret intermediate and final test results, ensuring analytic performance meets regulatory standards
Perform advanced case investigations for discordant results, contamination, and false positives
Coordinate data delivery for clinical studies and clinical reporting
Stay current with industry advancements, tools, and techniques
apply innovative solutions to bioinformatics challenges
Serve as Testing Personnel under CLIA and NYS regulations

What we offer

Paid time off (including days for vacation, holidays, volunteering, and personal time)
Paid leave for parents and caregivers
A retirement savings plan
Wellness support
Health benefits including medical, prescription drug, dental, and vision coverage
Bonus eligibility

Fulltime

Senior Bioinformatics Scientist

The Senior Bioinformatics Scientist, with input from senior scientists and leade...

Location

United States , San Diego

Salary:

128000.00 - 192000.00 USD / Year

Exact Sciences

Expiration Date

Until further notice

Requirements

Ph.D. in bioinformatics, computational biology, computer science, mathematics, or related field
or Master’s degree in same fields plus 4 years of experience in lieu of a Ph.D.
or Bachelor’s degree in same fields plus 6 years of experience in lieu of Ph.D.
5+ years of industry or academia experience in bioinformatics
3+ years of experience in medical device/IVD, biotech, life science or pharmaceutical industry
Extensive experience in Linux-based HPC or cloud computing environments and associated tools
Ability to write custom code in at least three programming or scripting languages
Technical expert in the area of molecular biology and/or biochemistry and/or next-generation sequencing (NGS) and genomics
Knowledge of product/assay research, design, or development
Working knowledge of statistical and mathematical methods in biology/genetics, including experience with statistical software, such as JMP or R

Job Responsibility

Conduct analyses within several product or technology areas and identify problems and discrepancies
Independently develop, plan, and analyze results of bench level experiments within several product or technology areas
effectively present and clearly communicate findings at data meetings, group meetings and project team meetings
Analyze research/experimental data, interpret the results, and provide insights into the next steps and the direction of the project
Independently develop methods and procedures for new assignments/study/experiments
Provide technical guidance to junior scientists in project teams
Manage bench-generated data and bioinformatics outputs within high performance computing (HPC) or cloud computing environment
Determine, utilize, and apply methods or technologies effectively and provide ideas for new techniques, when appropriate
Maintain knowledge of technological industry developments that could assist in completion of an assignment or aid in the development of new processes or procedures
Provide technical input and participate in decisions affecting project planning and experimental design

What we offer

Paid time off (including days for vacation, holidays, volunteering, and personal time)
Paid leave for parents and caregivers
A retirement savings plan
Wellness support
Health benefits including medical, prescription drug, dental, and vision coverage
Bonus eligibility

Fulltime

Senior Process Engineer, Oncology

We are looking for a Senior Process Engineer to join our growing superstar Proce...

Location

United States , Menlo Park

Salary:

126721.00 - 168961.00 USD / Year

BillionToOne

Expiration Date

Until further notice

Requirements

Bachelor’s or Master’s (preferred) degree in biology, bioengineering, or related sciences
At least 5-6 years of experience with molecular biology techniques in a research or clinical laboratory
Proficiency in R and/or python
Proficiency in handling complex data sets, including back-end data wrangling, database querying, and dashboard development
Strong Statistical Analysis skills
Strong Experience designing rigorous, well controlled studies
Experience with data presentation and technical report authoring
Experience working with GMP, ISO, or equivalent highly-regulated environments, with strong knowledge of Quality Management Systems and practices.
Excellent attention to detail
Effective written and verbal communication skills

Job Responsibility

Develop strategies to support >3X annual growth in commercial volume
Build tools and processes to enhance statistical Process Control to enable increasing assay performance and decreasing failure rates during rapid scale-up
Mentor junior engineers and help to establish strong skills and industry best practices across the growing PE team
Plan studies in conjunction with R&D to identify CPPs, process tolerances, and failure modes during late stage product development
Work with Bioinformatics and data science to translate assay CQAs into impactful and actionable process monitoring tools
Develop new data and information handling tools to aid in efficient sample processing within the clinical laboratory
Source and evaluate external technologies which might benefit COGS, process throughput, assay performance, or other key operational metrics
Apply six sigma, Design-for-quality, and 5S frameworks to existing or new processes to improve both capability, scalability, and quality of molecular diagnostic assays
Support high throughput CLIA lab through troubleshooting instrumentation and re-qualifying instrumentation back into clinical use
Identify root causes for process and instrument errors and develop long term solutions

What we offer

Working alongside brilliant, kind, passionate and dedicated colleagues, in an empowering environment, toward a global vision, striving for a future in which transformative molecular diagnostics can help millions of patients
Open, transparent culture that includes weekly Town Hall meetings
The ability to indirectly or directly change the lives of hundreds of thousands patients
Multiple medical benefit options
employee premiums paid 100% of select plans, dependents covered up to 80%
Extremely generous Family Bonding Leave for new parents (16 weeks, paid at 100%)
Supplemental fertility benefits coverage
Retirement savings program including a 4% Company match
Increase paid time off with increased tenure
Latest and greatest hardware (laptop, lab equipment, facilities)

Fulltime

Senior Bioinformatics Developer

Saphetor

Location:

Category:
IT - Software Development

Contract Type:
Employment contract, B2B

Salary:

Job Description:

Job Responsibility:

Requirements:

Nice to have:

Additional Information:

Job Posted:
March 03, 2026

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Job Posted:March 03, 2026

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