Bioinformatics Jobs in New York
Bioinformatics jobs in New York are concentrated in one of the most active life sciences and biomedical research markets in the country, with demand across academic medical centers, pharmaceutical companies, and genomics-focused startups from entry-level analysts through senior computational scientists. New York City, Buffalo, and Albany are the leading hiring metros, anchored by institutions like Memorial Sloan Kettering Cancer Center, Regeneron Pharmaceuticals, and Pfizer. The most in-demand specialties include genomic data analysis, structural bioinformatics, and clinical bioinformatics supporting precision medicine initiatives. Find a role that fits below and apply directly.
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NYU Grossman School of Medicine is one of the nation's top-ranked medical schools. For 175 years, NYU Grossman School of Medicine has trained thousands of physicians and scientists who have helped to shape the course of medical history and enrich the lives of countless people. An integral part of NYU Langone Health, the Grossman School of Medicine at its core is committed to improving the human condition through medical education, scientific research, and direct patient care. At NYU Langone Health, equity and inclusion are fundamental values. We strive to be a place where our exceptionally talented faculty, staff, and students of all identities can thrive. We embrace inclusion and individual skills, ideas, and knowledge.
For more information, go to med.nyu.edu, and interact with us on LinkedIn, Glassdoor, Indeed, Facebook, X and Instagram.
Position Summary:
We have an exciting opportunity to join our team as a Sr. Bioinformatics Developer.
NYU Langone Health seeks an experienced Bioinformatics Developer to design, develop, and implement end-to-end molecular testing data integration pipelines. This role will focus on harmonizing multi-vendor genomic data from clinical molecular testing platforms and building automated data transformation pipelines to load standardized datasets into cBioPortal, OMOP Genomics Extensions, and other analytics platforms. The ideal candidate combines strong software engineering skills with deep domain expertise in cancer genomics, clinical molecular testing, and bioinformatics data standards.
Job Responsibilities:
Genetic Data Harmonization & Integration
Harmonize and standardize molecular testing data from multiple vendors including Foundation Medicine, Guardant Health, Tempus, and in-house PACT testing platforms
Process and integrate VCF, XML, and BAM format files across all vendors and test types (somatic, germline, liquid biopsy, solid tumor) at gene and alteration levels
Convert vendor-specific formats (Foundation Medicine CNV/rearrangements, Guardant data) to common standardized formats
Map genomic variants to common standards including HGVS nomenclature
Implement annotation pipelines to uniformly annotate variants, enabling clear distinction between clinically relevant and other variants
Build automated data transformation and loading pipelines to ingest harmonized molecular testing data into cBioPortal, OMOP-CDM and its relevant genomics extensions, and Tableau
Develop end-to-end workflows that orchestrate the complete process from data harmonization through loading into multiple analysis systems
Design scalable, extensible, and modular pipeline architectures that facilitate future integration of new data sources
Implement robust data validation and quality control processes to ensure data integrity throughout the pipeline
Coordinate with NYU engineering teams to deploy and test solutions in production environments
Precision Medicine & Translational Research Support
Support development and validation of AI/ML-based risk assessment models using integrated genomic and clinical data from harmonized molecular testing datasets
Contribute to deep phenotyping initiatives by linking molecular testing results with comprehensive clinical phenotype data to enable genotype-phenotype correlation studies
Build and maintain precision medicine decision support pipelines that integrate genetic and molecular testing data to inform treatment selection and clinical trial matching
Develop data transformation workflows to support translational research studies linking molecular alterations to clinical outcomes and treatment responses
Create data marts and analytical datasets from harmonized molecular testing data to enable precision oncology research and biomarker discovery
Collaborate with clinical and research teams to validate clinical utility of genomic variants and support evidence-based precision medicine initiatives
Architecture & Requirements Analysis
Lead business analysis and requirements gathering to document systems architecture and software design for molecular testing data flows
Produce detailed technical specifications and design documents for scalable data integration solutions
Develop project plans with clear implementation, testing, validation, and deployment milestones
Architect solutions that support future extensibility to additional data sources and analysis platforms
Documentation, Training & Knowledge Transfer
Create comprehensive technical documentation for all pipelines, data transformations, and system configurations
Deliver source code, configuration files, and documentation organized in designated repositories (e.g., Git)
Provide training and handoff to NYU informatics teams to enable ongoing maintenance after deployment
Ensure all digital artifacts are well-organized and accessible for future extensions
Work with NYU molecular oncology and informatics teams to validate data transformations and confirm usability in cBioPortal
Minimum Qualifications:
- Master's degree in Bioinformatics, Computational Biology, Computer Science, or related field required; PhD preferred
- 5+ years of hands-on experience developing bioinformatics pipelines for genomic data processing
- Demonstrated experience with cBioPortal data integration, including file format specifications, data loading, and validation
- Proven track record building data harmonization pipelines for multi-vendor clinical molecular testing data
- Experience working with clinical cancer genomics data from commercial testing vendors (Foundation Medicine, Guardant, Tempus, or similar)
- Experience supporting translational research or precision medicine initiatives in academic medical center or clinical research setting
- Expert proficiency in Python for bioinformatics pipeline development and data transformation
- Strong experience with genomic file formats: VCF, BAM, XML, and variant annotation formats
- Solid understanding of HGVS nomenclature and genomic variant standardization
- Experience with cBioPortal data models, file formats, and data loading procedures
- Proficiency with SQL and relational databases (MySQL, PostgreSQL)
- Experience with version control systems (Git/GitHub) and collaborative software development
- Knowledge of OMOP Common Data Model concepts and implementation
Preferred Qualifications:
- Experience with workflow orchestration tools (Nextflow, Snakemake, Apache Airflow, or similar)
- Familiarity with containerization (Docker, Kubernetes) for reproducible pipeline deployment
- Knowledge of Tableau or other business intelligence platforms for genomic data visualization
- Experience with Java for cBioPortal backend customization
- Understanding of cloud platforms (AWS, GCP, Azure) for bioinformatics infrastructure
- Experience with machine learning frameworks (scikit-learn, TensorFlow, PyTorch) for clinical prediction models
- Knowledge of statistical analysis tools (R, Python pandas/scipy) for biomarker analysis
- Domain Knowledge:
- Deep understanding of cancer genomics: somatic mutations, copy number variations, structural rearrangements, germline variants
- Knowledge of clinical molecular testing workflows and laboratory data management
- Familiarity with variant annotation databases and clinical relevance classification (OncoKB, CIViC, ClinVar)
- Understanding of solid tumor vs. liquid biopsy testing methodologies
- Knowledge of precision oncology applications and clinical genomics data integration
- Understanding of genotype-phenotype relationships and molecular tumor boards
- Awareness of pharmacogenomics and targeted therapy selection principles
- Strong analytical and problem-solving skills with attention to detail in data quality and validation
- Excellent written and verbal communication skills for technical documentation and cross-functional collaboration
- Ability to work independently and manage complex projects with multiple stakeholders
- Experience translating scientific and clinical requirements into technical specifications
- Commitment to software engineering best practices including testing, documentation, and code quality
Qualified candidates must be able to effectively communicate with all levels of the organization.
NYU Grossman School of Medicine provides its staff with far more than just a place to work. Rather, we are an institution you can be proud of, an institution where you'll feel good about devoting your time and your talents. At NYU Langone Health, we are committed to supporting our workforce and their loved ones with a comprehensive benefits and wellness package. Our offerings provide a robust support system for any stage of life, whether it's developing your career, starting a family, or saving for retirement. The support employees receive goes beyond a standard benefit offering, where employees have access to financial security benefits, a generous time-off program and employee resources groups for peer support. Additionally, all employees have access to our holistic employee wellness program, which focuses on seven key areas of well-being: physical, mental, nutritional, sleep, social, financial, and preventive care. The benefits and wellness package is designed to allow you to focus on what truly matters. Join us and experience the extensive resources and services designed to enhance your overall quality of life for you and your family.
NYU Grossman School of Medicine is an equal opportunity employer and committed to inclusion in all aspects of recruiting and employment. All qualified individuals are encouraged to apply and will receive consideration. We require applications to be completed online.
View Know Your Rights: Workplace discrimination is illegal.
NYU Langone Health provides a salary range to comply with the New York state Law on Salary Transparency in Job Advertisements. The salary range for the role is $84,577.93 - $135,224.49 Annually. Actual salaries depend on a variety of factors, including experience, specialty, education, and hospital need. The salary range or contractual rate listed does not include bonuses/incentive, differential pay or other forms of compensation or benefits.
To view the Pay Transparency Notice, please click here
NYU Grossman School of Medicine is one of the nation's top-ranked medical schools. For 175 years, NYU Grossman School of Medicine has trained thousands of physicians and scientists who have helped to shape the course of medical history and enrich the lives of countless people. An integral part of NYU Langone Health, the Grossman School of Medicine at its core is committed to improving the human condition through medical education, scientific research, and direct patient care. At NYU Langone Health, equity and inclusion are fundamental values. We strive to be a place where our exceptionally talented faculty, staff, and students of all identities can thrive. We embrace inclusion and individual skills, ideas, and knowledge.
For more information, go to med.nyu.edu, and interact with us on LinkedIn, Glassdoor, Indeed, Facebook, X and Instagram.
Position Summary:
We have an exciting opportunity to join our team as a Sr. Bioinformatics Developer.
NYU Langone Health seeks an experienced Bioinformatics Developer to design, develop, and implement end-to-end molecular testing data integration pipelines. This role will focus on harmonizing multi-vendor genomic data from clinical molecular testing platforms and building automated data transformation pipelines to load standardized datasets into cBioPortal, OMOP Genomics Extensions, and other analytics platforms. The ideal candidate combines strong software engineering skills with deep domain expertise in cancer genomics, clinical molecular testing, and bioinformatics data standards.
Job Responsibilities:
Genetic Data Harmonization & Integration
Harmonize and standardize molecular testing data from multiple vendors including Foundation Medicine, Guardant Health, Tempus, and in-house PACT testing platforms
Process and integrate VCF, XML, and BAM format files across all vendors and test types (somatic, germline, liquid biopsy, solid tumor) at gene and alteration levels
Convert vendor-specific formats (Foundation Medicine CNV/rearrangements, Guardant data) to common standardized formats
Map genomic variants to common standards including HGVS nomenclature
Implement annotation pipelines to uniformly annotate variants, enabling clear distinction between clinically relevant and other variants
Build automated data transformation and loading pipelines to ingest harmonized molecular testing data into cBioPortal, OMOP-CDM and its relevant genomics extensions, and Tableau
Develop end-to-end workflows that orchestrate the complete process from data harmonization through loading into multiple analysis systems
Design scalable, extensible, and modular pipeline architectures that facilitate future integration of new data sources
Implement robust data validation and quality control processes to ensure data integrity throughout the pipeline
Coordinate with NYU engineering teams to deploy and test solutions in production environments
Precision Medicine & Translational Research Support
Support development and validation of AI/ML-based risk assessment models using integrated genomic and clinical data from harmonized molecular testing datasets
Contribute to deep phenotyping initiatives by linking molecular testing results with comprehensive clinical phenotype data to enable genotype-phenotype correlation studies
Build and maintain precision medicine decision support pipelines that integrate genetic and molecular testing data to inform treatment selection and clinical trial matching
Develop data transformation workflows to support translational research studies linking molecular alterations to clinical outcomes and treatment responses
Create data marts and analytical datasets from harmonized molecular testing data to enable precision oncology research and biomarker discovery
Collaborate with clinical and research teams to validate clinical utility of genomic variants and support evidence-based precision medicine initiatives
Architecture & Requirements Analysis
Lead business analysis and requirements gathering to document systems architecture and software design for molecular testing data flows
Produce detailed technical specifications and design documents for scalable data integration solutions
Develop project plans with clear implementation, testing, validation, and deployment milestones
Architect solutions that support future extensibility to additional data sources and analysis platforms
Documentation, Training & Knowledge Transfer
Create comprehensive technical documentation for all pipelines, data transformations, and system configurations
Deliver source code, configuration files, and documentation organized in designated repositories (e.g., Git)
Provide training and handoff to NYU informatics teams to enable ongoing maintenance after deployment
Ensure all digital artifacts are well-organized and accessible for future extensions
Work with NYU molecular oncology and informatics teams to validate data transformations and confirm usability in cBioPortal
Minimum Qualifications:
- Master's degree in Bioinformatics, Computational Biology, Computer Science, or related field required; PhD preferred
- 5+ years of hands-on experience developing bioinformatics pipelines for genomic data processing
- Demonstrated experience with cBioPortal data integration, including file format specifications, data loading, and validation
- Proven track record building data harmonization pipelines for multi-vendor clinical molecular testing data
- Experience working with clinical cancer genomics data from commercial testing vendors (Foundation Medicine, Guardant, Tempus, or similar)
- Experience supporting translational research or precision medicine initiatives in academic medical center or clinical research setting
- Expert proficiency in Python for bioinformatics pipeline development and data transformation
- Strong experience with genomic file formats: VCF, BAM, XML, and variant annotation formats
- Solid understanding of HGVS nomenclature and genomic variant standardization
- Experience with cBioPortal data models, file formats, and data loading procedures
- Proficiency with SQL and relational databases (MySQL, PostgreSQL)
- Experience with version control systems (Git/GitHub) and collaborative software development
- Knowledge of OMOP Common Data Model concepts and implementation
Preferred Qualifications:
- Experience with workflow orchestration tools (Nextflow, Snakemake, Apache Airflow, or similar)
- Familiarity with containerization (Docker, Kubernetes) for reproducible pipeline deployment
- Knowledge of Tableau or other business intelligence platforms for genomic data visualization
- Experience with Java for cBioPortal backend customization
- Understanding of cloud platforms (AWS, GCP, Azure) for bioinformatics infrastructure
- Experience with machine learning frameworks (scikit-learn, TensorFlow, PyTorch) for clinical prediction models
- Knowledge of statistical analysis tools (R, Python pandas/scipy) for biomarker analysis
- Domain Knowledge:
- Deep understanding of cancer genomics: somatic mutations, copy number variations, structural rearrangements, germline variants
- Knowledge of clinical molecular testing workflows and laboratory data management
- Familiarity with variant annotation databases and clinical relevance classification (OncoKB, CIViC, ClinVar)
- Understanding of solid tumor vs. liquid biopsy testing methodologies
- Knowledge of precision oncology applications and clinical genomics data integration
- Understanding of genotype-phenotype relationships and molecular tumor boards
- Awareness of pharmacogenomics and targeted therapy selection principles
- Strong analytical and problem-solving skills with attention to detail in data quality and validation
- Excellent written and verbal communication skills for technical documentation and cross-functional collaboration
- Ability to work independently and manage complex projects with multiple stakeholders
- Experience translating scientific and clinical requirements into technical specifications
- Commitment to software engineering best practices including testing, documentation, and code quality
Qualified candidates must be able to effectively communicate with all levels of the organization.
NYU Grossman School of Medicine provides its staff with far more than just a place to work. Rather, we are an institution you can be proud of, an institution where you'll feel good about devoting your time and your talents. At NYU Langone Health, we are committed to supporting our workforce and their loved ones with a comprehensive benefits and wellness package. Our offerings provide a robust support system for any stage of life, whether it's developing your career, starting a family, or saving for retirement. The support employees receive goes beyond a standard benefit offering, where employees have access to financial security benefits, a generous time-off program and employee resources groups for peer support. Additionally, all employees have access to our holistic employee wellness program, which focuses on seven key areas of well-being: physical, mental, nutritional, sleep, social, financial, and preventive care. The benefits and wellness package is designed to allow you to focus on what truly matters. Join us and experience the extensive resources and services designed to enhance your overall quality of life for you and your family.
NYU Grossman School of Medicine is an equal opportunity employer and committed to inclusion in all aspects of recruiting and employment. All qualified individuals are encouraged to apply and will receive consideration. We require applications to be completed online.
View Know Your Rights: Workplace discrimination is illegal.
NYU Langone Health provides a salary range to comply with the New York state Law on Salary Transparency in Job Advertisements. The salary range for the role is $84,577.93 - $135,224.49 Annually. Actual salaries depend on a variety of factors, including experience, specialty, education, and hospital need. The salary range or contractual rate listed does not include bonuses/incentive, differential pay or other forms of compensation or benefits.
To view the Pay Transparency Notice, please click here
See All 6 Bioinformatics Jobs in New York
Find roles in New York that match your experience and apply in just a few clicks.
Find Bioinformatics JobsBioinformatics Jobs by City in New York
Where New York roles are concentrated, by current openings.
Bioinformatics Job Market in New York
A snapshot from current New York openings, updated as new roles post.
Who's Hiring
Top Industries Hiring
- Science & Research
- Consulting & Professional Services
What New York Employers Look For
The qualifications that appear most often in bioinformatics jobs across New York.
- Bachelor's or master's degree in bioinformatics, computational biology, or a closely related field
- Proficiency in Python, R, or Perl for analyzing large biological datasets
- Experience with genomics pipelines and tools such as GATK, BWA, or STAR
- Familiarity with high-performance computing environments and cloud platforms like AWS or Google Cloud
- Strong background in statistics and machine learning applied to biological data
- Experience working with clinical or translational research data in a regulated environment
Bioinformatics Jobs in New York: Frequently Asked Questions
How do you become a bioinformatics in New York?
Most bioinformatics positions in New York require at minimum a bachelor's degree in bioinformatics, computational biology, genetics, or computer science, with many research and clinical roles expecting a master's degree or doctorate. New York does not issue a state-specific license for bioinformaticists, so hiring decisions center on demonstrated computational skills, published research, or a strong project portfolio. Candidates targeting academic medical centers or hospital systems in New York City should highlight experience with clinical genomics or EHR-integrated pipelines.
How much do bioinformaticses make in New York?
Bioinformaticses in New York earn a median of about $104,120 a year, based on May 2025 Bureau of Labor Statistics wage data, ranging from around $67,030 for the lowest 10% to over $169,890 for the top 10%. Pay rises with experience, specialty, and employer.
Which companies hire bioinformaticss in New York?
Employers hiring bioinformaticss in New York right now include NYU Langone Health, Thermo Fisher Scientific, and Albert Einstein College of Medicine, based on current listings on Migrate Mate as of August 2026. New York's concentration of major cancer research centers, pharmaceutical headquarters, and genome sequencing companies means openings appear consistently across both the private and academic sectors.
Which New York cities have the most bioinformatics jobs?
New York, Bronx, and Albany lead New York for bioinformatics openings. New York City dominates because it hosts the densest cluster of academic medical centers, biotech firms, and pharmaceutical offices in the state, while smaller markets like Buffalo benefit from research activity at institutions such as the University at Buffalo and Roswell Park Comprehensive Cancer Center.
Are there remote bioinformatics jobs in New York?
Yes, and more than most fields. About 100% of bioinformatics openings tied to New York are remote or hybrid as of August 2026, reflecting the analytical and computational nature of most tasks in this role. Pipeline development, data analysis, and variant annotation work is especially well-suited to fully remote arrangements, while positions that require direct lab collaboration or clinical data access tend to be on-site or hybrid.
How can I get hired as a bioinformatics in New York with little or no experience?
The most realistic entry path is securing a research assistant or junior analyst role at one of New York's large academic medical centers, such as those affiliated with Cornell, Columbia, or NYU, where new graduates regularly support ongoing genomics or computational biology projects. Building a public portfolio on GitHub demonstrating RNA-seq or variant-calling workflows gives candidates a measurable edge. Lateral moves from wet-lab research associate or data analyst roles in pharma are common, and completing a recognized graduate certificate in bioinformatics strengthens applications considerably.
Where can I find and apply to bioinformatics jobs in New York?
You can find and apply to bioinformatics jobs in New York on Migrate Mate, which lists current New York openings updated regularly. Find the roles that fit your background and apply directly through the listings.
See All 6 Bioinformatics Jobs in New York
Find roles in New York that match your experience and apply in just a few clicks.
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