Machine Learning Research Scientist, Interpretability

Department: Engineering

Location: New York HQ 🗽

Compensation: $120K – $250K • Offers Equity

Employment Type: FullTime

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 Biosciences is currently in stealth, operated by a team of repeat founders and biotech veterans with multiple exits in AI and biology, and backed by top VCs including Y Combinator.

As a Machine Learning Research Scientist, Interpretability, you'll work alongside our founders and team members to develop AI systems capable of processing and reasoning across multiple biological data modalities simultaneously.

• You will develop specialized methods for understanding our biological reasoning models, reverse-engineering how they represent and process complex biological information.

• You will design and conduct experiments to uncover interpretable features across biological scales.

• You will address unique challenges in biological model interpretation, such as disentangling the multi-scale, hierarchical representations of biological systems 

• You will build biology-specific visualization tools that can map model activations to meaningful biological concepts.

Who We're Looking For:

• You have a Bachelor's degree in Computer Science, Computer Engineering, Mathematics, Physics, or a relevant technical field.

• You have a PhD with 2 years of research experience, or a Bachelor's degree with 4+ years of research or industry experience in Deep Learning, Artificial Intelligence, or other relevant fields.

• You have a strong publication record in top-tier AI conferences or journals (e.g., NeurIPS, ICML, ICLR).

• You are proficient in Python and have expertise in at least one major deep learning framework (PyTorch, TensorFlow, or JAX).

Who You Are:

• You have excellent problem-solving skills and the ability to quickly adapt to new challenges.

• You exhibit a proactive approach to problem-solving, thinking beyond the specific task, taking ownership of challenges, and taking 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.

• You are motivated by making a real impact and are committed to tackling problems of significant consequence with determination and creativity.

Bonus points:

• You have experience applying machine learning to biological or chemical problems.

• You have knowledge of physics, molecular biology, chemistry, computational biology, bioinformatics, cheminformatics, or related fields.

• You have experience with multi-modal learning.

• You have contributed to open-source machine learning projects/

• You have experience in developing efficient code in C/C++.

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