Data Scientist – Drug Discovery (m/w/d)

Allschwil, Basel-Land, Switzerland
Full Time

Data Scientist – Drug Discovery (m/w/d)

Allschwil, Basel-Land, Switzerland 

Full Time | Apply Here


The Company

We are Alloy Therapeutics—a biotechnology ecosystem company empowering the global scientific community to make better medicines together. Through a community of partners, we democratize access to pre-competitive tools, technologies, services, and company creation capabilities that are foundational for discovering and developing therapeutic biologics. The company facilitates affordable, non-exclusive access to the entire drug discovery community from academic scientists, small and medium biotech, to the largest biopharma. At Alloy, we believe our industry should compete on getting the best drugs to patients as quickly as possible, not exclusive access to the best platforms. As a reflection of our relentless commitment to the scientific community, we reinvest 100% of its revenue in innovation and access to innovation. MAY THE BEST DRUG WIN.


Alloy is headquartered in Waltham, MA with additional labs in Cambridge, UK; Basel, CH; San Francisco, CA; and Athens, GA. Successful members thrive in our shared culture of accountability, deliberate trust, and open communication. As a team we aspire to work together to exceed expectations and collectively contribute across the global organization to always maintain our nimble, startup culture. Come thrive at Alloy!


The Team 

The Data Scientist will be part of the Global Informatics team with team members in the US and Basel (Switzerland). This team provides informatics, AI, machine learning, and data solutions to Alloy’s research teams located in Waltham (MA), Athens (GA), San Francisco (CA), and Cambridge (UK). 


The Role 

As a Data Scientist (Drug Discovery), you will work with an interdisciplinary team of biologists, computer scientists, and computational chemists to support Alloy’s drug discovery & engineering efforts across various modalities, focusing on antibody and TCR-based drugs. The successful candidate will have a deep understanding of common machine learning concepts & theory and has demonstrated their ability to translate theoretical knowledge to real-world applications in drug discovery & engineering. The individual has experience working with protein structures (preferably of antibodies and TCRs) and next-generation sequencing (NGS) datasets of immune repertoires or in-vitro selections. Additional expertise in other drug modalities is considered a plus. 


This role requires a deep scientific interest in modern, data-centric approaches to drug discovery (demonstrated by your scientific publication record) and a passion for improving wet-lab workflows with meaningful computational methods. The individual is expected to be highly organized, accountable for their deliverables, and be able to work independently with minimal day-to-day supervision. The successful candidate will be able to grow in this role by taking on more responsibilities as well as representing the team at scientific meetings & conferences.


This role will report to the Director of Machine Learning & Data Science with autonomy owning various stakeholders, projects, and tasks in a dynamic start-up environment while keeping up the pace of Alloy. This is you! 



How You’ll Drive Impact 

  • Learn: You are genuinely interested in your research area and love to stay at the forefront of science.
  • Innovate: You will develop novel computational approaches for drug discovery & engineering and work with colleagues to implement these in real-world applications. 
  • Collaborate: You enjoy exchanging ideas with others and love to work in a team environment where the whole team as a group drives impact.
  • Lead: You are a self-starter, able to lead and manage yourself. You inspire others by going the extra mile and paying attention to details that others miss.
  • Communicate: You can communicate new ideas & insights clearly and engagingly, not only to experts in your field but also to non-experts and senior management.


Why We Value You 

  • You have a strong background in Mathematics, Statistics, Computational Biology, or related fields, Ph.D. is preferred.
  • You have hands-on experience applying machine learning models to biological datasets such as next-generation sequencing data, protein characterization data and protein structures.
  • You have prior experience supporting the direct discovery and characterization of large-molecule drugs.
  • You have a good understanding of common machine-learning concepts and statistical theory.
  • You possess a deep understanding of modern machine and deep learning approaches, with a focus on transformer-based architectures, graph neural networks, and geometric deep learning.
  • You are proficient in Python and are familiar with common libraries and frameworks such as scikit-learn, XGBoost, Tensorflow, and PyTorch.
  • You have experience working in cloud environments, preferably AWS and their SageMaker ecosystem.
  • You understand how to deploy machine learning systems to production using tools such as MLflow, ONNX, and others.
  • You are familiar with good software development practices and tools like unit testing, CI/CD, Git and Code reviews.
  • You are fluent in English and highly communicative, transparent, and collaborative with research and informatics peers.


Desired Multipliers  

  • Familiarity with RDBMS concepts, SQL and NoSQL databases
  • Additional knowledge of cloud computing infrastructure (networking, security, storage) and their operation and configuration (AWS preferred)
  • Ability to work across various international time zones 
  • Accommodate occasional travel as needed (5%)


Taking Care of Our People

We support the individuality of what people need to do outside of work to empower them to do their best at work. While you focus on making better medicine together, we focus on programs and benefits that support a diverse and growing team. Whether you’re single, in a growing family, or nearing retirement, Alloy offers a variety of comprehensive and competitive benefits starting from day one.  


  • Competitive base and equity compensation
  • Competitive contributions to your second pillar

Health & Family

  • Flexible paid parental leave 
  • Family planning support up to 50,000 CHF (e.g. IVF/PGT, adoption, egg retrieval)

Unique Perks

  • Flexible work schedule built around our team-driven philosophy
  • Annual stipend for continuing education with a commitment to your career through an individualized professional development plan
  • Regular team events and social activities
  • International travel insurance

Diversity, Equity, and Inclusion

Here at Alloy, we democratize capabilities for discovering and developing therapeutic biologics. So, being diverse and inclusive isn’t just something we strive for, it is who we are, and part of what we do each and every single day. We want to ensure that as an employee, you feel Alloy is a place where, no matter who you are, you feel safe, included, and that you have the opportunity to bring your unique self to work. 




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