Bioinformatics Scientist

Natera’s Research team is building tests that can detect many cancers from a single blood draw. We are looking for a Senior or Lead Bioinformatics Scientist to join the team building the technology at the heart of that effort. You will work with large-scale, multi-modal genomic datasets from clinical cohorts and partner closely with molecular biologists and clinical scientists. You will help advance the state-of-the-art and drive new methods from prototype, through scalable implementation, toward clinical validation and, ultimately, to patients. PRIMARY RESPONSIBILITIES: Develop and validate new algorithms to analyze large multimodal epigenomic datasets Drive research analyses through implementation, testing and performance evaluation, including developing new features within existing pipelines Work with sequencing and clinical data from large cohorts, ensuring data integrity and quality control Partner with molecular biologists and clinical scientists to solve challenging, open-ended problems Visualize results and present complex findings to both technical and non-technical audiences Contribute to the team’s standards for code quality and reproducibility QUALIFICATIONS: Ph.D. in Bioinformatics, Computer Science, Biology, or a related field; alternatively a Bachelor’s or Master’s degree with at least 4 years of professional experience Track record developing and validating analysis workflows for high-throughput sequencing data Experience applying and evaluating statistical and ML methods to large datasets Strong quantitative reasoning and data analysis skills, applied effectively to real scientific problems. Software development experience, including proficiency in Python and its scientific computing ecosystem Fluent using Linux command-line tools and cloud computing environments Strong verbal and written communication skills Preferred Experience Working knowledge of DNA methylation and other epigenomic data Experience with cell-free DNA and liquid biopsy samples Ba

Natera’s Research team is building tests that can detect many cancers from a single blood draw. We are looking for a Staff Machine Learning and Bioinformatics Scientist to help design the models at the heart of that effort. You’ll work with large-scale, multi-modal genomic datasets from clinical cohorts and partner closely with molecular biologists and clinical scientists. Your research will advance the state-of-the-art and you will drive new methods from prototype, through scalable implementation, toward clinical validation and, ultimately, to patients. PRIMARY RESPONSIBILITIES: Lead the development of novel statistical and machine learning methods for cancer signal detection on multi-modal genomic data Build interpretable, well-calibrated models, setting the standard for uncertainty estimation and reproducibility across the group Prototype, test and productionize ML models using scalable infrastructure Own key technical deliverables within larger projects and help shape the team’s research roadmap Collaborate closely with molecular biologists and clinical experts on design and analysis of experiments and validation studies Keep raising the bar through code and design reviews across projects Translate complex results into clear stories for technical and non-technical audiences Mentor junior scientists and champion a culture of curiosity, collaboration, and scientific excellence QUALIFICATIONS: PhD in Computer Science, Mathematics, Bioinformatics, or a related quantitative field with 6-12 years of experience post-PhD Hands-on experience developing novel statistical / ML analysis methods applied to complex biological data Proven track record of innovation and technical leadership in complex method development projects Expertise in deep learning and multimodal foundation models Proficient in Python and its scientific computing ecosystem Scientific rigor throughout the R&D process, with eagerness to teach and learn new computational methods and biology Excellent co

POSITION SUMMARY: Natera is hiring a Machine Learning Scientist to join our AI and computational biology team. This role develops and deploys deep learning models across digital pathology, genomics, transcriptomics, and cell-free DNA (cfDNA) modalities. You will build multimodal AI systems that integrate imaging, molecular, and clinical data, leveraging proprietary genomic and clinical datasets. You will collaborate with scientists, pathologists, bioinformaticians, and software engineers to scale machine learning approaches that advance personalized oncology diagnostics and tumor-informed minimal residual disease (MRD) testing. PRIMARY RESPONSIBILITIES: Design, implement, and evaluate deep learning models across biomedical data modalities, including histopathology imaging, genomic sequencing, transcriptomics, and cfDNA features Develop multimodal AI architectures that integrate H&E whole-slide imaging data with molecular and clinical data sources Build scalable, production-quality machine learning workflows and pipelines using cloud infrastructure (AWS) Apply modern machine learning techniques including convolutional neural networks (CNNs), vision transformers (ViTs), sequence transformers, representation learning, and foundation model fine-tuning Collaborate across technical and clinical teams to translate machine learning prototypes into validated tools Analyze model outputs to generate reproducible biological and clinical insights Document pipelines thoroughly and communicate data-driven findings clearly to cross-functional stakeholders QUALIFICATIONS: PhD in Computer Science, Computational Biology, Biomedical Engineering, Bioinformatics, Statistics, or a related quantitative discipline with a focus on machine learning or AI Core experience developing machine learning models for biomedical applications, specifically in medical imaging, computational pathology, genomics, transcriptomics, multi-omics, or molecular diagnostics Hands-on expertise with PyTorch and

This is an exciting opportunity to lead and grow the Data Science and Bioinformatics function supporting Natera's Women's Health and Organ Health product portfolios. In this role, you will build the bioinformatics capability within the Data Science development team, establish scalable AWS cloud infrastructure, and ensure the quality and reproducibility of the genomic algorithms powering our clinical products. PRIMARY RESPONSIBILITIES: Strategy and Vision Build and define the Bioinformatics function within the Data Science development team, identify technical tooling gaps, and execute a roadmap to advance genomics-based algorithm development. Establish and enforce pipeline and algorithm quality standards, including review processes, validation frameworks, and documentation practices Infrastructure and Automation Own and architect scalable AWS-based data science and bioinformatics infrastructure, ensuring quality, reproducibility, and reliable deployment of Next-Generation Sequencing (NGS) algorithms. Implement MLOps tooling and automated validation frameworks to support reliable algorithm deployment into clinical production. Cross-Functional Collaboration Partner with Research, Product Development, Laboratory Operations, Engineering, and Quality teams to implement stable, scalable pipelines and support successful productization Team Leadership Lead, mentor and hire a high-performing team of bioinformaticians and data scientists, establishing technical quality standards and clear operational ownership. Build technical depth within the team to support expanding product roadmaps across Women's Health and Organ Health. QUALIFICATIONS: Master of Science or Ph.D. in a quantitative technical discipline (Biostatistics, Bioinformatics, Computer Science, Physics, Applied Mathematics, or equivalent). Minimum of 10 years of experience in Data Science or Bioinformatics, with at least 5 years of direct people management experience leading technical teams. Hands-on experience archi