Roche · 18 hours ago
Senior Machine Learning Engineer - BRAID Genomics
South San Francisco
Full-time
Onsite
Senior Level
$167K/yr - $311K/yr
5+ years expRoche is a leading company in healthcare innovation, focused on advancing science for better health outcomes. They are seeking a Senior Machine Learning Engineer to develop and deploy machine learning methods for genomics data, with responsibilities including building production-grade systems and collaborating with scientists to enhance drug discovery.
BiotechnologyHealth CareHealth DiagnosticsOncologyPharmaceuticalPrecision Medicine
Responsibilities
Training, fine-tuning, evaluation, benchmarking, deployment of DNA/RNA sequence-to-function models
Design scalable data and training pipelines (distributed training, efficient dataloading, reproducibility, experiment tracking)
Build and maintain production-grade inference systems (APIs/SDKs, latency/cost optimization, reliability, monitoring)
Establish engineering best practices for ML codebases: CI, unit/integration tests, model versioning, documentation, and code reviews
Collaborate closely with computational biologists, wet-lab partners, and platform teams to define requirements, success metrics, and adoption pathways
Qualification
Required
PhD with 5+ years professional software engineering experience (or equivalent), including ownership of production services or ML platforms
Strong Python engineering skills (clean architecture, packaging, testing, CI, performance profiling)
Deep experience with PyTorch, including training workflows and debugging numerical/performance issues
Experience with modern deep learning for sequences or high-dimensional biological data (transformers, representation learning, generative modeling)
Familiarity with regulatory genomics or functional genomics data and evaluation (e.g., expression/splicing/chromatin assays; variant effect prediction)
Excellent communication skills; ability to translate scientific needs into reliable software and measurable deliverables
Preferred
Experience with long-context sequence modeling and established genomic frameworks (e.g., Enformer/Borzoi-style models)
Distributed training and systems experience (multi-GPU, DDP/FSDP, mixed precision; GPU profiling/optimization)
MLOps experience (model registry, experiment tracking, deployment pipelines, monitoring/drift)
Experience with single-cell and scverse ecosystem tools (scanpy/anndata, etc.)
Publications or open-source contributions in ML + genomics are a plus
Benefits
A discretionary annual bonus may be available based on individual and Company performance.
This position also qualifies for the benefits detailed at the link provided below.
Company
Roche
Roche is a pharmaceutical and diagnostics company that offers medicines and diagnostic tests for various medical conditions and diseases.
10001+ employees
H1B Sponsorship
Roche has a track record of offering H1B sponsorships. Please note that this does not
guarantee sponsorship for this specific role. Below presents additional info for your
reference. (Data Powered by US Department of Labor)
Distribution of Different Job Fields Receiving Sponsorship
Represents job field similar to this job
Trends of Total Sponsorships
2025 (12)
2024 (9)
2023 (6)
2022 (2)
2021 (2)
Funding
Current Stage
Public CompanyTotal Funding
$7.79BKey Investors
SoftBankSCALE AINovartis
2021-08-04Post Ipo Equity· $5B
2020-12-07IPO
2020-05-06Post Ipo Equity· $0.5M
Leadership Team
Alan Hippe
Member of the Executive Board - Group CFO
Christine Bakan
Global Head and Group Vice President, Computational Science and Informatics R&D
Recent News
2026-02-03
2026-02-03
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