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Staff Engineer, Machine Learning

Eikon Therapeutics
Hayward, CA
Start date
Jun 14, 2024

Job Details

Eikon Therapeutics is a new biopharmaceutical company employing revolutionary technology at the intersection of chemistry, engineering, computation, and biology to discover novel treatments for life-threatening diseases. Eikon’s discovery platform is built on groundbreaking innovations from its founders (Nobel Prize, 2014), culminating in the creation of microscopes which enable real time, molecular-resolution measurements of protein movement in living cells, thereby unlocking otherwise intractable classes of proteins as drug targets.


As part of Eikon’s diverse team, you will interface with biologists, chemists, microscopists, and optical and automation engineers to design and deploy computational solutions that enable the exploration and quantification of Eikon’s high-content datasets. 

About You 

You are an adventurous, passionate, and creative software engineer eager to apply your talents to empower interdisciplinary scientific exploration, inaugurate a radical drug-discovery paradigm, and ultimately create novel medicines. You will bring to this challenge enthusiasm, high energy, intellectual curiosity, and scientific rigor. 

What You’ll Do 

  • Help define and develop and implement machine learning algorithms to support chemistry and advance our drug discovery programs. 
  • Design and optimize algorithms and models for chemical property prediction, compound screening, and reaction optimization. 
  • Deploy machine learning models into production environments and ensure scalability, reliability, and performance. 
  • Work collaboratively with scientists and engineers to understand tactical needs, prototype, and then productionize software to keep experiments moving forward. 
  • Work on multiple projects simultaneously, developing milestones and deadlines in coordination with the broader company goals. 


  • Bachelor's with 8 years of relevant experience, or a Master’s degree with 5 years of relevant experience, or a PhD with 3 years of relevant experience in Computer Science, Software Engineering; or equivalent work experience
  • Strong background in machine learning, statistics, data analysis techniques and chemistry and chemical terms/concepts. 
  • Strong Python programming expertise required 
  • Experience with cheminformatics tools and libraries (e.g., RDKit, Open Babel) for chemical data processing and manipulation 
  • Experience with MLOPs frameworks (e.g. ZenML, Metaflow, MLFlow) preferred 
  • Experience with simulation software like Rosetta, deepchem, graph representation learning, and vector databases preferred 
  • Ability to efficiently investigate and solve problems, from prototype development to production designs 
  • Familiarity with biology and biological terms/concepts at the college freshman level preferred 
  • Ability to efficiently investigate and solve problems, from prototype development to production designs 
  • Excellent verbal and written communication skills 
  • Team-oriented, flexible, able to adapt to rapidly evolving goals and challenges 
  • Enthusiasm for drug discovery essential 

Target Base $192K * Target Bonus 20% = $230K Total Target Cash / Target Base $219K * Target Bonus 20% = $262K Total Target Cash

At Eikon, employee compensation also includes bonus and equity compensation, in addition to several generous benefit programs, including:​

  • 401k plan with company matching​
  • Medical (premiums covered by Eikon at 95%), dental and vision insurance (premiums covered by Eikon at 100%)​
  • Mental health and wellness benefits​
  • Weeklong summer and winter holiday shutdowns​
  • Generous paid time off and holiday policies​
  • Life/AD&D Insurance (premiums covered by Eikon at 100%) and optional supplemental employee-paid life/AD&D policies ​
  • Enhanced parental leave benefit​
  • Daily subsidized lunch program when on-site​

The expected salary range for this role is $192,600 to $219,400 depending on skills, competency, and the market demand for your expertise.

Eikon is proud to be an equal opportunity employer and will consider all qualified applicants for employment.

In accordance with the Company’s duty to provide and maintain a safe workplace, the Company requires all employees to be Fully Vaccinated with one of the FDA approved COVID-19 vaccines, which includes those vaccines that have received the FDA’s emergency use authorization. You will be expected to be Fully Vaccinated as of your Start Date. If you believe that you are exempt from this requirement under an applicable law or regulations, including Americans with Disabilities Act and California’s Fair Employment and Housing Act, you will need to contact the Company’s Human Resources group. For purposes of this section, Fully Vaccinated means (i) the completion of the vaccination regimen as approved by the FDA (by way of example, 2 doses of the Pfizer or Moderna vaccine and 1 dose of the Johnson and Johnson vaccine), and (ii) timely receiving booster vaccination, as recommended by the Centers for Disease Control and Prevention.

We are currently not accepting any new third-party agencies or firms at this time. Please do not forward unsolicited agency resumes to our website, employees or Human Resources. Eikon Therapeutics will not pay fees to any third-party agency or firm associated with unsolicited resumes.


Eikon is a pioneering drug discovery and development company that leverages superior engineering and high-performance computing to analyze single molecule protein behavior in living cells. We are engineering a battery of innovative tools and technologies for biological exploration in drug discovery and beyond.

Eikon thrives on the energy and creativity of interdisciplinary teams. We are physicists and chemists, biologists and engineers. We spend our days context-switching between multiple scientific languages. We work with lasers, super-resolution microscopes, and robot arms. We leverage machine learning, cell line engineering, and the collective intelligence of world-class scientists and technologists to observe therapeutically relevant biology in a way no one has before.

We’re endlessly curious, intellectually honest and we love what we do. We’re driven to learn the true mechanisms of biology and pharmacology at the molecular level, to make the biggest difference in as many lives as possible.

Company info
3929 Point Eden Way

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