Member of the Technical Staff, Biological Data

Output Biosciences; New York (NY); On-site; USD 80,000 - 120,000; Full time

Benefits offered by this job

Competitive salary and equity

Excellent medical, dental, and vision coverage

Job summary

Namely, based in New York, is seeking a candidate for a role focused on constructing training datasets that capture molecular interactions. You will utilize your expertise in biology and programming to develop innovative data strategies.

The ideal applicant holds a PhD in computational biology and has experience with large-scale datasets. A competitive salary and equity are offered, along with excellent benefits.

Qualifications

• You have a PhD in computational biology, biophysics, or a related field with relevant research experience.
• Deep understanding of molecular interactions, protein structure, and biological data.
• Experience with large-scale datasets, including sourcing, cleaning, and analyzing data.

Responsibilities

• Construct training datasets for molecular interactions from varied biological sources.
• Develop methods to expand training data based on biological reasoning.
• Design benchmarks to evaluate model capabilities against real molecular phenomena.

Skills

Understanding of molecular interactions

Programming skills in Python

Experience with large-scale biological datasets

Data integration and analysis skills

Education

PhD in computational biology or related field

Tools

Computational biology tools

Job description

The Role

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.

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.

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.

• You will 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
• You will 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
• You will design benchmarks grounded in real molecular phenomena, measuring whether our models have learned biologically meaningful capabilities rather than statistical shortcuts
• You will 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
• You will design approaches for integrating data across biological scales and modalities, building coherent training data from heterogeneous experimental and computational sources
• You will design rigorous splitting and evaluation strategies that prevent leakage and ensure model capabilities generalize to real biological problems
• You will stay current with biological data sources, experimental methods, and molecular databases, continuously identifying new sources of training signal

About You

• You have a 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
• You have deep understanding of molecular interactions, protein structure, and biological data at the molecular level, grounded in first principles rather than surface familiarity
• You have experience working with large-scale biological or molecular datasets, including sourcing, cleaning, integrating, and analyzing heterogeneous data
• You have strong programming skills in Python and are comfortable building computational pipelines for data processing at scale
• You understand what machine learning models require from training data: coverage, quality, balance, and evaluation rigor
• You approach data construction as a research problem, not a pipeline task: you think carefully about what data means, what signal it carries, and what is absent

Bonus Points

• You have experience with computational biology tools such as structure prediction, molecular docking, or virtual screening
• You have experience training or evaluating machine learning models, particularly on molecular or biological data
• You have publications in computational biology, bioinformatics, or molecular informatics
• You have a background in cheminformatics or molecular data analysis
• You have experience working with protein or molecular language models

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