Senior Data Engineer, Cheminformatics/Bioinformatics


San Francisco, CA, US
  • Job Type: Full-Time
  • Function: Data Science
  • Post Date: 12/06/2020
  • Website:
  • Company Address: , San Francisco, CA

About Atomwise

Atomwise patented the first deep learning technology for structure-based small molecule drug discovery. This AI technology harnesses millions of data points and thousands of protein structures to solve problems that a human chemist would take many lifetimes to solve. We've partnered with some of the world’s largest pharmaceutical and agrochemical companies, and with more than 50 leading academic institutions and hospitals, to tackle the challenges of discovering and developing better drugs and chemicals. Recently, Atomwise raised $45 million from leading venture capital firms to support the development and application of its AI technology.

Job Description

At Atomwise, we invented the first deep learning neural networks for structure-based small molecule drug discovery and we’re currently deploying it in one of the largest applications of machine learning for life sciences. We work on Alzheimer’s, cancer, diabetes, drug-resistant antibiotics, safe pesticides, among treatments for other diseases. We’ve partnered with 4 of the top-10 US pharma companies, raised over $50M from top VCs, and have 100+ diverse projects currently running.

We are looking for a data engineer or data scientist with strong database and software engineering skills, ideally in a scientific domain such as cheminformatics or bioinformatics. You will be contributing to the design and development of massive cheminformatic datasets for machine learning, with the opportunity to construct novel analyses which inform our ML directions for drug discovery research. As a member of the R&D team, you’ll have the chance to interact daily with software engineers, machine learning scientists, computational chemists, and fellow cheminformaticians.

Required qualifications

  • M.Sc/Ph.D. in Computer Science, Statistics, Cheminformatics, Bioinformatics, Computational Biology or B.S. in Computer Science with 7+ years experience.
  • Strong computer science fundamentals
  • 5+ years of experience in database engineering, data processing pipelines, and HPC
  • Strong database design and software-engineering best practices
  • Strong knowledge of statistics, data analytics, and data visualization
  • Strong coding skills in at least one high-level programming language (Python, Java, C++, etc)
  • Good familiarity with Linux command-line environment

Preferred qualifications

  • Experience in bioinformatics or cheminformatics, working with ingestion of third-party and internal data sources
  • Experience working with scalable algorithms utilizing large amounts of data
  • Experience with cloud computing environments (AWS/Azure/GCE)
  • Experience with non-relational databases
  • Familiarity with organic chemistry

Compensation & benefits

  • Competitive salary, commensurate with experience.
  • Stock compensation plan – you’ll be an Atomwise co-owner.
  • Platinum health, dental, and vision benefits.
  • 401k with 4% match.
  • Flexible work schedule.
  • Generous parental leave.
  • Relaxed work environment.
  • Great colleagues.

Atomwise is an equal opportunity employer and strives to foster an inclusive workplace.  Our mission is to develop better medicines faster, and we know that we need a diverse team to develop medicines that serve diverse populations.  Accordingly, the Company does not make any employment decisions (including but not limited to, hiring, compensation, and promotions) on the basis of race, religion, color, national origin, gender, gender identity, sexual orientation, age, veteran status, disability status, or any other characteristics protected by applicable federal, state, and local law.

We strongly encourage people of diverse backgrounds and perspectives to apply.

Atomwise is not currently offering visa sponsorships for any position. Please only apply if eligible to work in the U.S.

Pursuant to the San Francisco Fair Chance Ordinance, we will consider for employment qualified applicants with arrest and conviction records.

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This company does NOT accept candidates from outside recruiting firms. Agency contacts are not welcome.