Output Biosciences

Role Description Output has built a biological reasoning model that understands biology at the scale and complexity life actually operates. Our model independently learned the principles of molecular interactions, opening up drug treatments that were previously impossible. We're already generating therapies that traditional approaches cannot reach. The hardest problems in both AI and biology are being solved here, and there is room for you to own one. You are a drug hunter. You own the scientific strategy behind Output's drug discovery programs. You help select targets for our pipeline, evaluate what the models generate, and make the scientific decisions that advance candidates from computational generation to real-world testing. - You will identify and evaluate therapeutic targets, building the scientific rationale for which programs to pursue and why. - You will analyze model outputs to assess drug candidates, evaluating biological plausibility, therapeutic potential, and readiness for advancement. - You will prioritize candidates and make scientific go/no-go decisions, advancing the strongest compounds through the discovery pipeline. - You will manage CRO partnerships for candidate synthesis and biological testing, designing experiments that validate or refine drug design hypotheses. - You will work closely with the founders and model team, bringing drug discovery expertise to model evaluation and development priorities. - You will stay current with target biology, disease mechanisms, and the clinical landscape across relevant therapeutic areas. Qualifications - You have a PhD in pharmacology, medicinal chemistry, chemical biology, computational biology, or a related field with 5+ years of drug discovery experience in pharma or biotech, or equivalent depth through extensive industry experience. - You have hands-on experience advancing drug discovery programs through pipeline stages: target selection, hit identification, hit-to-lead, and lead optimization. - You have demonstrated experience evaluating drug candidates and making scientific go/no-go decisions on real programs. - You are comfortable working directly with computational model outputs and analyzing AI-generated molecular data. - You have strong scientific judgment across target biology, disease mechanisms, and therapeutic modalities. - You can build and defend a scientific rationale, communicate across disciplines, and make decisions under uncertainty. Requirements - You have experience with AI-driven drug discovery or computational drug design tools. - You have experience managing CRO relationships for synthesis and biological testing. - You have experience across multiple therapeutic areas or modalities, including small molecules and peptides. - You have a track record of advancing compounds into preclinical or clinical development. - You have programming skills in Python, with the ability to work with data analysis tools and model outputs hands-on. - You have publications at top-tier venues or relevant drug discovery and medicinal chemistry journals. Benefits - We encourage new and different ideas, creativity and contrarian thinking. - Healthy feedback focused environment to help you strive. Leadership will have high expectations, regularly share constructive feedback, support you and help you grow, and welcome receiving feedback and ideas from you. - You own your day-to-day management. What we care about is that we all hit our milestones. - Competitive salary and equity in a growing, well-funded startup. - Excellent medical, dental, and vision coverage. Company Description Output is currently in stealth, operated by a team of repeat founders and biotech veterans with multiple exits in AI x Bio, and backed by top-tier VCs including Y Combinator.

Role Description Output has built a biological reasoning model that understands biology at the scale and complexity life actually operates. Our model independently learned the principles of molecular interactions, opening up drug treatments that were previously impossible. We're already generating therapies that traditional approaches cannot reach. The hardest problems in both AI and biology are being solved here, and there is room for you to own one. You will own the data that our models learn from. This role requires a deep understanding of molecular biology - what a biological data source contains, what it implies, and what is missing. The quality and coverage of training data determines what our models can learn, and the biological insight behind how that data is constructed is the difference between a model that memorizes and one that reasons. - Construct training datasets that capture how proteins and molecules interact, drawing from diverse biological data sources and extending them with your understanding of molecular principles. - Develop methods to expand training data beyond what exists in public databases, using biological and chemical reasoning to create new training signal where current data is sparse or absent. - Design benchmarks grounded in real molecular phenomena, measuring whether our models have learned biologically meaningful capabilities rather than statistical shortcuts. - Develop data strategies in collaboration with model researchers, determining what the model should learn from, what biological signal to prioritize, and how to sequence learning across modalities. - Design approaches for integrating data across biological scales and modalities, building coherent training data from heterogeneous experimental and computational sources. - Design rigorous splitting and evaluation strategies that prevent leakage and ensure model capabilities generalize to real biological problems. - Stay current with biological data sources, experimental methods, and molecular databases, continuously identifying new sources of training signal. Qualifications - PhD in computational biology, biophysics, structural biology, chemistry, biochemistry, or a related biological field with 2+ years of post-doctoral or industry research experience, or equivalent depth through a combined biology and computational background. - Deep understanding of molecular interactions, protein structure, and biological data at the molecular level, grounded in first principles rather than surface familiarity. - Experience working with large-scale biological or molecular datasets, including sourcing, cleaning, integrating, and analyzing heterogeneous data. - Strong programming skills in Python and comfortable building computational pipelines for data processing at scale. - Understanding of what machine learning models require from training data: coverage, quality, balance, and evaluation rigor. - Approach data construction as a research problem, thinking carefully about what data means, what signal it carries, and what is absent. Bonus Points - Experience with computational biology tools such as structure prediction, molecular docking, or virtual screening. - Experience training or evaluating machine learning models, particularly on molecular or biological data. - Publications in computational biology, bioinformatics, or molecular informatics. - Background in cheminformatics or molecular data analysis. - Experience working with protein or molecular language models. Benefits - Encouragement of new and different ideas, creativity, and contrarian thinking. - Healthy feedback-focused environment to help you strive; leadership will have high expectations, regularly share constructive feedback, support you and help you grow, and welcome receiving feedback and ideas from you. - Ownership of day-to-day management; focus on hitting milestones. - Competitive salary and equity in a growing, well-funded startup. - Excellent medical, dental, and vision coverage. Our Values - ❤️ Heart: We foster a culture of ownership. We are assembling a team of individuals who are passionate and take pride in their contributions. - 🏆 Excellence: We have an unwavering commitment to excellence and continuously challenge ourselves to reach the highest standards. - 🚀 Practicality: We value practicality and results-oriented thinking. We are committed to making a tangible impact on the lives of patients and the broader community. - 📣 Honesty: We place a high value on honesty and directness. We firmly believe in addressing issues as they arise, in an open and transparent manner. - 🎮 Fun: We believe that life is too short to not have fun. Our goal is to create a workplace that is fun, engaging, rewarding, and fulfilling.

The Role Join our team and help build the world's first biological reasoning model. Work with us to build generative foundational models that decode biological systems across scales - from molecules to organisms - enabling us to predict, understand, and program living systems in ways never before possible. Output is currently in stealth, operated by a team of repeat founders and biotech veterans with multiple exits in AI x Bio, and backed by top-tier VCs including Y Combinator. As a Senior Computational Biologist, you'll work alongside members of our research team and our founders to develop AI systems capable of complex biological reasoning across multiple scales. - You will develop machine learning methods to extend our predictive and generative platform - You will design and execute computational pipelines to validate and prioritized de novo generated molecules using state of the art tools - You will use your deep understanding of biology to design novel therapeutics for hard-to-target proteins with our generative models - You will analyze and integrate large-scale biological datasets - Your work will directly impact the development of our biologically-aware AI platform, transforming the landscape of medicine Make a real tangible impact on millions of lives by pushing the boundaries of AI in biology. Who We're Looking For - You have a PhD in a biological field and strong programming skills in Python - You have experience with computational biology tools such as structure prediction, molecular docking and virtual screening - You have experience working with Protein or Chemical Language Models - You like to work collaboratively in a fast-paced startup environment - You are passionate about using data science to unlock the secrets of biology - You exhibit a proactive approach to problem-solving, thinking beyond the specific task, taking ownership of challenges, and pride in solving them - You have a mature mindset in ambiguous situations, helping to frame questions and seek clarity while making decisions in the face of uncertainty - You have excellent communication skills and can clearly articulate complex technical concepts Bonus Points - You have hands-on experience building AI/ML using PyTorch and Lightning - You have experience with cloud computing platforms like AWS - You have hands-on biology laboratory experience - You have contributed to peer-reviewed publications in computational biology - You have knowledge of machine learning techniques applied to biological data Our Values ❤️ Heart: We foster a culture of ownership. We are assembling a team of individuals who are passionate and take pride in their contributions. 🏆 Excellence: We have an unwavering commitment to excellence and continuously challenge ourselves to reach the highest standards. 🚀 Practicality: We value practicality and results-oriented thinking. We are committed to making a tangible impact on the lives of patients and the broader community. 📣 Honesty: We place a high value on honesty and directness. We firmly believe in addressing issues as they arise, in an open and transparent manner. 🎮 Fun: We believe that life is too short to not have fun. Our goal is to create a workplace that is fun, engaging, rewarding and fulfilling. What We Offer - We encourage new and different ideas, creativity and contrarian thinking - Healthy feedback focused environment to help you strive - leadership will have high expectations, regularly share constructive feedback, support you and help you grow, and welcome receiving feedback and ideas from you - You own your day-to-day management. What we care about is that we all hit our milestones - Competitive salary and equity in a growing, well-funded startup - Excellent medical, dental, and vision coverage