Machine Learning Data Scientist

Are you ready for the challenge of using Gordian’s vast in vivo perturbation datasets to predict shifts in cellular disease states, drawing on data from both patients and animal models to identify novel therapeutic targets for complex diseases of aging? You’ll work with experts in disease biology, with a mandate to find and apply the latest approaches for predicting gene expression changes’ effects on cellular states, and similarly use our data to improve prediction of physiological phenotypes from single cell transcriptomics.

Key Qualifications:

  • A strong quantitative background, e.g. from degrees/work in math, engineering, or physics
  • Significant experience applying machine learning and other quantitative methods to single cell transcriptomic data.
  • Created one or more machine learning-based software tools for classifying and/or modeling single cell data.
  • Thoroughly comfortable with python/R, github/gitlab, PyTorch/TensorFlow/Keras, cloud computing environments, and workflow languages. 

The Company:
Gordian Biotechnology is a therapeutics company focused on diseases of aging, the major unmet medical need of our generation.
Age-related diseases have complex causes that include interactions with the aged environment, and traditional ex vivo screening methods have failed to produce effective treatments. In contrast, Gordian’s platform delivers and tests hundreds of therapeutics in individual animals to generate the most relevant preclinical datasets, at scale.

The Journey:
Our mission is ambitious, and the path will be full of both challenges and excitement. Two things characterize the Gordian experience: 1) We work as a team, with ownership in our own roles and trust in each other. 2) We strive for extraordinary outcomes, and in doing so grow our skills and capability.

Team – Relying on each other begins with transparency. We set clear goals, visible to all, connecting individuals and teams to our company objectives. This empowers each of us to make autonomous decisions with the bigger picture in mind. We give and receive feedback from a perspective of helping each other grow, share mistakes, and ask for help.

Extraordinary – Every day, we ask ourselves ‘could this process/outcome be even better?’. Knowing our overall mission, we do what we think helps us make the most progress, without asking for permission. We don’t shy away from big challenges or unknown territory, but find a way to excel. Our colleagues are amazing, both at what they do and as people. They inspire us to keep up, to not let them down, and be inspiring in return. 

Like any cutting-edge research environment, Gordian doesn’t believe in a standard 9 to 5 day. We set ambitious project goals and support each other to meet them, while maintaining the balance individuals need to thrive and achieve excellence. Our team is geared towards helping each other out and maintaining a culture of intellectual and social fun. We like getting things done and keep standing meetings to a minimum. Last year, in accordance with our unlimited vacation policy, each member took an average of 2.5 weeks of (offline) vacation, not including major holidays. We unwind with weekly team lunches, and support each others’ projects both experimentally and by collaborative planning. If this environment sounds appealing, help us bring it to life. We are at the beginning of a long journey, and want both your ability and your personality along for the ride. Our culture is a source of great pride; it represents both who we are, and who we wish to be. 

You can dive deeper here: 

And you:
You have a history of successful execution, both in- and outside of your job description. You want a chance to do your best work, immerse yourself and excel, with people you’ll want to spend your days with.
You truly want to play a key role in an early-stage startup: A fast-paced environment full of both uncertainty and new challenges, demanding relentless resourcefulness.
You have experience managing time-sensitive projects, in collaboration with other specialists. You have deep expertise, and broad curiosity. You are excited to use and develop cutting-edge technology to advance biology and human health.

Your mission in this role is to amplify the power of Gordian’s in vivo screening platform, by building and applying machine learning tools for interpretation and out-of-sample predictions of cell states and responses. Gordian has multidimensional data across many cell types, with thousands of biological perturbations, in many species. With your help, this lets us identify not just cell state changes in disease, but the transitions that lead to these outcomes. Our data is unique, and making sense of it will require methodological innovation. You’re excited to use and extend state of the art tools for analyzing cell states from transcriptomic data, in order to draw biological conclusions and guide target discovery. Your work will happen in constant dialogue with both bioinformaticians and biologists; they will bring you biological hypotheses to explore using our data, and you will generate hypotheses which we can test using our screening platform. Output from the tools you build will be used by the whole company, and you’ll design and document them accordingly.
In your first six months you will contribute one major improvement to each of three areas: 1) mapping animal perturbation results onto human transcriptomic data to quantify translatability of response, 2) identifying likely causal factors in disease-related transcriptomic shifts to prioritize targets to test, and 3) identifying transcriptomic features that correspond to specific aspects of pathophysiology to better interpret our single cell data. To do this, you will have access to both public and Gordian proprietary human patient data, as well as data from multiple animal models. We have a broad range of calibration interventions in these models, which will allow you to test hypotheses with well-controlled experimental data. Your one month progress towards these goals will be to establish a framework for testing and adding new data to reference datasets, including automatic annotation by QC metrics, as well as improving Gordian’s current methods for classifying source sample metadata for newly sequenced cells.

The Details:
Gordian aims to provide everything you need to thrive. Beyond our community and science, you’ll have enough equity to be a true stakeholder in the company, competitive salary, full health/dental/vision/life insurance, whatever vacation you need to be at your peak, remote work flexibility, and access to world-class mentors and advisors to support your professional growth. Our building is in South San Francisco.

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