Senior Bioinformatics Engineer Spatial Ai jobs in San Francisco – Browse 8,488 openings on RoboApply Jobs

Senior Bioinformatics Engineer Spatial Ai jobs in San Francisco

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companyLatchBio logo
Full-time|On-site|San Francisco

Senior Bioinformatics EngineerJoin LatchBio, where we are pioneering AI agents that empower over 4,000 scientists in analyzing and interpreting data from cutting-edge spatial and multi-omic tools in the biotechnology sector.We are looking for a highly skilled Senior Bioinformatics Engineer with a robust computational background—ideally, your expertise lies in computer science, mathematics, or statistics, complemented by a strong grasp of biological concepts. In this pivotal role, you will not only perform complex analyses but also establish quality benchmarks for your peers: reviewing analytical processes, identifying errors, and ensuring that all outputs are scientifically sound and defensible.Your ResponsibilitiesLead comprehensive biological data analyses across various projects, guiding data from raw platform outputs through QC, dimensionality reduction, cell typing, and differential expression to robust biological claims.Oversee and evaluate the work of fellow bioinformatics engineers, ensuring analytical integrity and that all documentation meets gold-standard quality.Develop reproducible workflows and maintain clear decision logs detailing filtering processes and rationale, changes in conclusions, and criteria for falsifying claims.Design and implement computational tools or packages that enhance analysis efficiency within the team.Essential QualificationsA solid understanding of algorithms for high-dimensional data analysis (e.g., PCA, UMAP, neighborhood graphs, spectral methods) and the ability to discern their appropriate applications.Proficient in statistical inference concepts: hypothesis testing, confidence intervals, estimators, and corrections for multiple testing.Demonstrated experience in publishing or deploying computational tools or packages utilized by external users (open-source libraries, internal platforms, or production pipelines).Successfully analyzed 3 or more datasets from raw data to actionable insights, suitable for publications or impactful industry experiments.Knowledge of the landscape of computational biology tools for prevalent analysis tasks (e.g., clustering, cell typing, differential expression, enrichment).Preferred ExperienceExperience with comprehensive spatial transcriptomics analysis for technologies such as Seeker, Trekker (Slide-seq), MERFISH, DBiT-seq, Xenium, Visium, Stereo-seq, GeoMx, CosMx, or similar assays.Advanced spatial reasoning skills beyond standard clustering, including neighborhood and adjacency enrichment, spatial gradients and niches, spatial differential expression, and spatial autocorrelation.

Mar 3, 2026
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companyLatchBio logo
Full-time|On-site|San Francisco

Bioinformatics Engineer - Spatial AIJoin LatchBio, where our innovative AI agents empower over 4,000 scientists to effectively analyze and interpret complex data generated from cutting-edge spatial and multi-omic tools within the biotech industry.We are on the lookout for proficient bioinformatics engineers with a robust background in both computational and experimental aspects of spatial biology. Your role will be pivotal in shaping the future of agentic analysis tools.Your ResponsibilitiesLead comprehensive spatial transcriptomics analyses for various projects, from processing raw platform outputs to quality control, cell segmentation, cell typing, differential expression/enrichment, and spatial inference, ultimately substantiating biological claims.Develop reproducible workflows that provide transparent decision traces detailing filters applied, rationale behind them, and factors that could alter conclusions.Engage in advanced spatial reasoning techniques beyond standard clustering, focusing on neighborhood and adjacency enrichment, spatial gradients, spatial differential expression, and analyses that account for spatial autocorrelation.Tackle platform and data challenges with accuracy, transforming ambiguous results into clear hypotheses, conducting sanity checks, and creating systematic debugging plans.Essential QualificationsProven experience in end-to-end data analysis using one or more spatial technologies such as Seeker, Trekker (Slide-seq), MERFISH, DBiT-seq, Xenium, Visium, Stereo-seq, GeoMx, CosMx, or equivalent assays.Experience analyzing 3 or more datasets from raw data to actionable insights for publications or industry-related experiments.Strong understanding of kit-specific quality control thresholds and the ability to discern meaningful numerical outcomes.Familiarity with computational biology tools tailored for spatial tasks, such as cell segmentation, cell typing, and ligand-receptor interaction analysis.Preferred QualificationsPublished work utilizing contemporary spatial biology methodologies.Experience in developing tools or software packages for spatial biology applications.Background in generating training data for AI agents or foundational models.Who You AreYou are a scientifically adept engineer who seamlessly integrates experimentation with computational analysis. You embrace the possibility of being incorrect, adapt your views based on evidence, and document your decisions to enable reproducibility and constructive critique. Your communication skills are exceptional, and you are committed to maintaining the integrity of your work.

Mar 3, 2026
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companyLatchBio logo
Full-time|Remote|San Francisco

Role Overview LatchBio is hiring a Bioinformatics Engineer focused on Single-Cell AI in San Francisco. This role centers on applying artificial intelligence to single-cell genomics data, with the goal of advancing personalized medicine. What You Will Do Analyze single-cell genomics datasets using AI methods Work with teams from different scientific backgrounds to build bioinformatics solutions Help uncover new insights into complex biological systems

Apr 14, 2026
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company
Full-time|On-site|San Francisco

Join the Prima Mente TeamAt Prima Mente, we are at the forefront of biology and artificial intelligence. Our innovative lab is dedicated to generating unique data, creating versatile biological foundation models, and translating groundbreaking discoveries into both research and clinical applications. Our primary focus is on unraveling the complexities of the brain to enhance its health, safeguard it against neurological disorders, and foster cognitive enhancement. Our diverse team of AI researchers, experimentalists, clinicians, and operations experts spans across London, San Francisco, and Dubai.Position Overview - Multi-omicsIn this role, you will be instrumental in formulating and questioning significant biological hypotheses aimed at discovering biomarkers and targets pertinent to neurological diseases.Key Responsibilities:Conduct feature engineering and prepare datasets for machine learning applications and foundational AI model training.Analyze in-house wet lab experiments to develop proprietary methods and generate data for our models.Build and optimize multi-omic bioinformatics pipelines.Establish and manage collaborative research initiatives with academic and industry partners focused on Alzheimer's disease biology.Growth ExpectationsWithin 1 month: You will independently manage your own analyses and experiments using our cloud computing environment, creating bespoke workflows to efficiently process data.Within 3 months: Your research will be seamlessly integrated into our AI models.Within 6 months: Your pipelines will be running in automated production, contributing to daily AI model training. You will collaborate closely with AI/ML engineers and lab scientists, leading the technical aspects of external partnerships.Who You AreYou aspire to push the boundaries of what is achievable at the intersection of AI and biology. You possess experience in deriving novel biological insights from multi-omic, multi-modal datasets, along with a track record of top-tier publications and/or patents.We understand that not every candidate will meet every qualification. We encourage strong applicants to apply, even if they specialize in certain areas and wish to expand their expertise in others.Preferred Qualifications:Practical experience in generating insights from biological datasets (genomics, epigenetics, transcriptomics, proteomics, ATAC-Seq).Proficient software engineering skills, including the ability to write high-quality code for operational purposes.

Mar 2, 2026
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company
Full-time|On-site|San Francisco

Join Prima Mente: A Leader in Biology AIAt Prima Mente, we are redefining the frontier of biology through artificial intelligence. Our mission is to generate unique datasets, develop versatile biological foundation models, and translate groundbreaking discoveries into impactful research and clinical outcomes. With a commitment to understanding the complexities of the brain, we aim to shield it from neurological diseases while enhancing overall health. Our diverse team of AI researchers, experimentalists, clinicians, and operational experts operates across London, San Francisco, and Dubai.Role Overview: GPU/CPU-Accelerated BioinformaticsWe are seeking a skilled Bioinformatics Software Engineer to architect and implement scalable production pipelines for processing multi-omics data. The successful candidate will enable rapid transitions from hypothesis to patent-ready solutions in a matter of months.Key Responsibilities:Design and implement bioinformatics pipelines optimized for GPU/CPU utilization utilizing tools like Flyte and Nextflow, capable of processing over 1,000 samples at scale.Optimize performance and cost efficiency by leveraging GPU/CPU acceleration where it provides the greatest benefit.Collaborate with experimental and machine learning teams to validate computational results and align processing with model requirements.Foster and manage collaborations with academic and industrial research partners.Growth Expectations1 Month: You will be deploying your workflows on GPU/CPU-accelerated cloud infrastructure to process multi-omic experiments, while building relationships with AI/ML and wet lab teams to understand their requirements.3 Months: Your optimized pipelines will be processing thousands of samples with substantial speed enhancements and reduced costs, yielding publication and patent-ready outcomes.6 Months: Your automated pipelines will support daily AI model training, and you will co-design experiments alongside AI/ML engineers, leading technical execution on external collaborations.Your ProfileYou are passionate about pushing the boundaries of AI and biology. As an engineer rather than an analyst, you thrive on enhancing performance and efficiency while architecting robust systems. You are comfortable making rapid technical decisions and iterate quickly.Desired QualificationsExperience in bioinformatics, computational biology, or a related field.Proficiency in software engineering, particularly in developing scalable data processing pipelines.Strong understanding of multi-omics data and methods.Familiarity with GPU/CPU acceleration techniques.Excellent communication and collaboration skills.

Mar 2, 2026
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companyMithrl logo
Full-time|On-site|San Francisco

Join Mithrl as a Lead Bioinformatics EngineerAt Mithrl, we envision a future where groundbreaking medicines are swiftly delivered to patients, transforming the landscape of health care.Mithrl is pioneering the world's first commercially available AI Co-Scientist, a revolutionary discovery engine that converts complex biological data into actionable insights in mere minutes. By simply asking questions in natural language, scientists receive immediate responses with comprehensive analyses, innovative targets, hypotheses, and patent-ready reports.Our impressive growth trajectory includes:12X year-over-year revenue growthTrusted by top-tier biotech firms and major pharmaceutical companies across three continentsFacilitating real breakthroughs from target discovery to patient outcomes.About the RoleWe are in search of an innovative Lead Bioinformatics Pipeline Engineer to architect and expand Mithrl’s multimodal scientific processing pipelines. You will be responsible for developing workflows that convert raw biological data into clean, reproducible outputs that fuel Mithrl’s AI Co-Scientist. Your work will encompass a range of modalities including microarray, imaging, spatial transcriptomics, genomics, epigenomics, flow cytometry, and more.This pivotal role lies at the core of our technical infrastructure. You will design Nextflow and nf-core style pipelines, implement modality-specific validation and quality control layers, and collaborate closely with our Tabular Data Team and Knowledge Curation Team to ensure seamless data harmonization, variable ID mapping, and schema alignment. Your contributions will enable scientists to pose inquiries and receive accurate, data-driven answers instantaneously.If you are passionate about constructing robust scientific workflows and tackling high-impact challenges, you will find your place here.

Dec 30, 2025
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company
Full-time|On-site|San Francisco

Join Prima Mente as a Bioinformatics EngineerAt Prima Mente, we are pioneers in the field of biology and artificial intelligence. Our mission is to generate novel data, create versatile biological foundation models, and turn groundbreaking discoveries into impactful research and clinical applications. Our primary focus is on understanding the human brain—protecting it from neurological diseases while enhancing its capabilities for better health. With teams located in London, San Francisco, and Dubai, we are committed to pushing the boundaries of AI and biology.Role Overview - Multi-omicsAs a Bioinformatics Engineer, you will play a crucial role in formulating and testing significant biological hypotheses aimed at discovering markers and targets related to neurological disorders.Key Responsibilities:Develop multi-omic bioinformatics pipelines.Conduct feature engineering and prepare datasets for downstream machine learning, foundational AI training, and applications.Analyze in-house wet lab experiments to create proprietary methods and data for our models.Growth ExpectationsWithin 1 month: You will manage your analyses and experiments using our cloud computing environment, developing workflows to process your data efficiently.Within 3 months: You will independently own and optimize an analysis or data processing pipeline, producing results suitable for patenting and publication.Within 6 months: You will have integrated your research findings into our AI models.Who You AreYou are eager to redefine the possibilities at the intersection of AI and biology. You possess experience in deriving insights from multi-omic and multi-modal data, contributing to top-tier publications.We understand that not every candidate will meet all the criteria. Ideal applicants will have strengths in some areas and a desire to develop in others.Ideal Qualifications:Experience generating insights from biological datasets (including genomics, epigenetics, transcriptomics, proteomics, and ATAC-Seq).Strong software engineering skills, with the ability to produce high-quality code that supports our software infrastructure.Familiarity with data wrangling, engineering, analysis, and visualization libraries in Python or Julia, as well as frameworks like Spark, Hadoop, and NoSQL.

Mar 2, 2026
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company
Full-time|On-site|San Francisco Bay Area

About Retell AIAt Retell AI, we are pioneering the future of call centers through innovative voice AI technology. Our cutting-edge solutions are transforming how companies engage with customers.In just 18 months since our inception, we've empowered thousands of businesses with our AI voice agents that efficiently manage sales, support, and logistics calls, significantly reducing the need for large teams of human agents. Supported by industry-leading investors including Y Combinator and Alt Capital, we've grown our annual recurring revenue from $5M to an impressive $36M while expanding our team from 5 to 20 talented individuals since 2025.Our ambitious vision for 2026 is to develop a state-of-the-art customer experience platform where entire contact centers are driven by AI. Unlike basic automation requiring constant human oversight, we’re engineering intelligent AI “workers” capable of serving as frontline agents, quality assurance analysts, and managerial roles, all while optimizing customer interactions continuously.We are rapidly expanding and seeking driven builders who thrive on solving complex technical challenges, act decisively, and wish to make a tangible impact in one of the fastest-growing voice AI startups.Join us in shaping the future!Recognized as a top 50 AI application in the a16z list: https://tinyurl.com/5853dt2xRanked #4 in Brex's Fast-Growing Software Vendors of 2025: https://www.brex.com/journal/brex-benchmark-december-2025Featured among the top startups on: https://leanaileaderboard.com/

Jan 26, 2026
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companyVeracyte, Inc. logo
Full-time|$122K/yr - $170K/yr|Remote|Remote ; San Diego, California, United States; South San Francisco, California, United States

Join Veracyte, a leader in transforming cancer care through innovative diagnostics that empower patients and clinicians alike. At Veracyte, we provide an inspiring work environment where you can make a significant impact on patients' lives while advancing your career. Our culture, known as the Veracyte way, emphasizes collaboration, resilience, and a commitment to excellence.Our Core Values:We Seek A Better Way: We boldly innovate and learn from challenges to improve cancer care.We Make It Happen: We prioritize urgency, quality, and enjoyment in our work.We Are Stronger Together: We foster open collaboration and celebrate our collective successes.We Care Deeply: We honor our diverse backgrounds and support each other in doing what is right.The Role:We are on the lookout for an enthusiastic Bioinformatics Research Scientist to join our Translational Bioinformatics group within the Bioinformatics and Data Science Team. This pivotal role involves leveraging computational and statistical techniques on extensive transcriptomic and genomic datasets, particularly focusing on prostate cancer biology and its clinical implications. The ideal candidate will play a key role in identifying clinically relevant molecular signatures that enhance disease stratification, prognosis, and the development of diagnostics, while effectively communicating findings to both scientific and clinical audiences. This position offers a unique opportunity to bridge the realms of data science, biology, and clinical research through close collaboration with scientists, clinicians, and cross-functional teams to convert complex data into actionable insights.

Apr 8, 2026
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company
Full-time|On-site|San Francisco Bay Area

Join Retell AIAt Retell AI, we leverage first principles to revolutionize the call center experience through innovative voice AI technology.In just 18 months since our launch, our AI voice agents have been adopted by thousands of companies to manage sales, support, and logistics calls, significantly reducing the need for large teams of human agents. Supported by Y Combinator, Alt Capital, and other notable investors, we've achieved impressive growth, scaling from $5M to $36M ARR with a dedicated team of 20.Looking ahead to 2026, we aim to create a comprehensive AI-powered Customer Experience (CX) platform that transforms entire contact centers. Instead of simple automation requiring ongoing human oversight, we are developing intelligent AI "workers" that serve as frontline agents, QA analysts, and managers — perpetually executing, monitoring, and enhancing customer interactions.We're experiencing rapid growth and are on the lookout for passionate innovators eager to tackle complex technical challenges, accelerate progress, and make a significant impact at one of the leading voice AI startups.Let’s build the future together.Ranked in the top 50 AI applications by a16z: https://tinyurl.com/5853dt2x#4 on Brex's Fast-Growing Software Vendors list for 2025: https://www.brex.com/journal/brex-benchmark-december-2025One of the top startups on: https://leanaileaderboard.com/

Feb 20, 2025
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company
Full-time|On-site|San Francisco

Responsibilities:Develop Our Product. Take ownership of software features that enhance our AI platform, empowering private market investors to analyze deals swiftly and accurately. This role requires you to actively engage in coding and delivering essential platform components from the ground up.Ensure Quality and Excellence. Establish and maintain coding standards, architectural guidelines, and review procedures; mentor fellow engineers. Co-cultivate a culture centered on practical, reliable, and test-driven development that swiftly meets business requirements.Scale for Growth. Assist in monitoring and scaling the architecture of our platform and its infrastructure.Collaborate Across Functions. Engage closely with product, security, and go-to-market teams to translate our strategic roadmap into actionable features and deliverables.

Sep 19, 2025
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companyAffinity logo
Full-time|Remote|San Francisco, CA; USA (Remote)

Join Affinity as a Senior AI Engineer and contribute to our cutting-edge AI platform. We are seeking a talented engineer passionate about artificial intelligence and its applications in real-world scenarios. In this role, you will collaborate with cross-functional teams to design, develop, and enhance AI solutions that drive our business forward.

Mar 13, 2026
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company
Full-time|On-site|San Francisco Bay Area

Join the Revolution at Retell AIRetell AI is pioneering the future of call centers through innovative voice AI, driven by first principles thinking.In just 18 months since our inception, we have empowered thousands of businesses with our AI voice agents, transforming how sales, support, and logistics calls are managed—previously requiring extensive human teams. Supported by prestigious investors such as Y Combinator and Alt Capital, we've rapidly scaled from $5M ARR to an impressive $36M ARR with a compact yet dynamic team of 20.Our ambition for 2026 is to create a revolutionary customer experience platform, where entire contact centers are powered by AI. Moving beyond basic automation, we aim to develop intelligent AI “workers” that serve as frontline agents, QA analysts, and managers, continuously enhancing customer interactions without the need for constant human oversight.As we expand, we are seeking passionate engineers who are eager to solve challenging technical problems, act swiftly, and make a significant impact in one of the fastest-growing voice AI startups. Let’s shape the future together.

Aug 12, 2025
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company
Full-time|On-site|San Francisco Office

fractional-ai is looking for a Senior or Staff Software Engineer to join the San Francisco office. This position centers on building advanced AI solutions with a team that values both technical depth and collaboration. Role overview This role focuses on designing and developing AI-driven systems. The work involves solving technical challenges and contributing to projects that push the boundaries of what AI can achieve. Collaboration with other engineers and stakeholders is a key part of daily responsibilities. Who will thrive Experienced engineers with a strong background in software development Those who enjoy working on complex technical problems Individuals who value teamwork and open communication Location This position is based in the San Francisco office.

Apr 28, 2026
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companyFieldguide logo
Full-time|On-site|San Francisco, CA

Join Fieldguide as a Senior AI Engineer, where you will lead innovative projects at the forefront of artificial intelligence. In this pivotal role, you will design, develop, and implement cutting-edge AI solutions that drive our business forward.We are looking for a passionate engineer who thrives in a dynamic environment and is eager to tackle complex challenges. You will collaborate closely with cross-functional teams to ensure the successful integration of AI technologies into our existing systems.

Mar 5, 2026
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companyAccordion logo
Full-time|On-site|Atlanta; Boston; Charlotte; Chicago; Dallas; Los Angeles; New York; San Francisco

Join Accordion as a Senior AI Engineer, where you'll be at the forefront of innovative AI solutions. In this key role, you will design, develop, and implement advanced artificial intelligence algorithms and models to enhance our product offerings. Collaborate with cross-functional teams to translate complex data into actionable insights, driving the success of our projects.

Mar 17, 2026
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company
Full-time|On-site|San Francisco Bay Area

Join Our Innovative Team at Retell AIRetell AI is at the forefront of revolutionizing the call center industry through advanced voice AI technology. In just 18 months since our inception, we have empowered thousands of businesses to optimize their sales, support, and logistics calls, which previously relied on large teams of human agents. Supported by prominent investors including Y Combinator and Alt Capital, we've achieved remarkable growth, scaling from $5 million to $36 million in annual recurring revenue (ARR) while expanding our talented team to 20 members.Our ambitious vision for 2026 is to develop a state-of-the-art customer experience platform, transforming entire contact centers with AI. Unlike traditional automation that requires ongoing human oversight, we are building intelligent AI "workers" capable of functioning as frontline agents, quality assurance analysts, and managers, constantly enhancing customer interactions.If you are a passionate innovator eager to solve complex technical challenges and make a tangible impact at one of the fastest-growing voice AI startups, we invite you to join us in shaping the future.Ranked among the top 50 AI applications by a16z: a16z List4th on Brex's Fast-Growing Software Vendors of 2025: Brex BenchmarkFeatured as a leading startup on: Leanaileaderboard

Nov 17, 2025
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company
Full-time|On-site|San Francisco Bay Area

Join Us at Retell AIRetell AI is revolutionizing the call center industry by leveraging innovative voice AI technology based on first principles.In just 18 months since our inception, we have attracted thousands of companies that rely on Retell's AI voice agents to efficiently manage sales, support, and logistics calls, previously handled by large teams of human agents. Supported by renowned investors such as Y Combinator and Alt Capital, we have rapidly grown from $5M to $36M in Annual Recurring Revenue (ARR) with a dedicated team of 20.Looking ahead to 2026, our ambition is to establish a state-of-the-art customer experience platform entirely powered by AI. We aim to create intelligent AI “workers” capable of serving as frontline agents, quality assurance analysts, and managers, continuously optimizing customer interactions without the need for constant human oversight.We are on an exciting growth trajectory and are seeking driven individuals who are eager to solve complex technical challenges, accelerate progress, and make a significant impact at one of the fastest-growing voice AI startups.Let’s innovate the future together!Ranked as a top 50 AI app by a16z: https://tinyurl.com/5853dt2x#4 on Brex's Fast-Growing Software Vendors of 2025: https://www.brex.com/journal/brex-benchmark-december-2025One of the top startups on: https://leanaileaderboard.com/

Dec 3, 2024
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companyHyperbolic Labs logo
Full-time|On-site|San Francisco, CA

Join Our MissionAt Hyperbolic Labs, we are dedicated to democratizing artificial intelligence by eliminating barriers to computing power through our Open-Access AI Cloud. We aggregate global computing resources to provide an innovative GPU marketplace and AI inference service, making AI affordable and accessible for everyone. As pioneers at the crossroads of AI and open-source technology, we envision a future where AI innovation is driven by imagination, not resource limitations. We invite forward-thinking individuals who share our vision of making AI universally accessible, secure, and cost-effective to join us in crafting a platform that empowers innovators to realize their groundbreaking AI projects.As we gear up for expansion following our Series A funding, our team, led by co-founders with PhDs in AI, Mathematics, and Computer Science, is set to transform the landscape of computing.The RoleWe are on the lookout for a Senior Infrastructure Engineer to drive the development and scaling of Hyperbolic's GPU Cloud Marketplace. In this pivotal role, you will create a multi-tenancy provisioning and virtualization solution that transforms raw GPUs from diverse global suppliers into a programmable, orchestrated resource pool serving thousands of AI developers and researchers. You will work at the forefront of cloud infrastructure, building the core orchestration layer that allows our platform to deliver cost savings of up to 75% compared to traditional cloud providers.

Mar 26, 2026
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companyArcade logo
Full-time|On-site|San Francisco Bay Area

Role Overview Arcade is looking for a Senior Applied AI Engineer in the San Francisco Bay Area. This position focuses on building solutions that use artificial intelligence to improve user experiences across Arcade’s products. What You Will Do Work with cross-functional teams to design and develop AI-driven features. Apply expertise in AI algorithms and software development to solve challenging problems. Contribute to the direction and impact of Arcade’s AI initiatives. Who We’re Looking For Extensive experience with artificial intelligence technologies. Strong background in software development and AI algorithms. Comfort working collaboratively with teams from different disciplines.

Apr 17, 2026

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