ML Research Intern (Summer) – MS/PhD (Computational Biology)

Genesis Therapeutics is building a world-class software team to solve problems in drug discovery through machine learning, biophysical simulation, and computational chemistry. We are looking for engineers excited to help develop new medicines and play a critical role in building out our software platform.

• Join our Computational Biology Principal Scientist to push the boundaries of drug discovery by leveraging advanced graph neural networks to integrate multi-modal genomics data with protein-protein interaction networks—transforming AI into real-world biomedical breakthroughs.
• Our successful candidate will embark on a dynamic 12-week summer internship, tackling impactful projects at the intersection of AI and drug discovery. You’ll implement cutting-edge graph-based machine learning models, develop integration pipelines for multi-modal omics datasets, and build robust validation frameworks for druggability predictions. You’ll contribute to documentation and reproducible analysis workflows, ensuring your research leaves a lasting impact. The internship culminates in a final presentation and report, giving you the opportunity to showcase your work and shape the future of AI-driven biomedicine.

• Develop and implement graph neural network architectures to capture protein-protein interaction networks
• Integrate and analyze GWAS, functional genomics data with existing druggability features
• Validate predictions using Open Targets data
• Document methodology and results
• Present findings to the research team

• Currently enrolled in a graduate program in Computational Biology, Bioinformatics, Computer Science, or related field
• A strong Python programmer
• Experienced with machine learning frameworks (PyTorch, TensorFlow, or similar)
• Knowledgable of biological networks and genomics data analysis
• Strong analytical and problem-solving skills

• Experience with graph neural networks or graph embedding techniques
• Familiarity with drug discovery concepts and terminology
• Previous work with biological network analysis
• Experience with large-scale genomics data processing
• Knowledge of drug target identification methods

• To apply, please submit a cover letter detailing your interest in the role and relevant experience, along with your academic transcript and contact information for two academic references. We’re looking for passionate researchers eager to push the boundaries of AI in drug discovery—if that sounds like you, we encourage you to apply and join us in shaping the future of computational biology!

Genesis Therapeutics is unifying AI and biotech to discover novel and breakthrough treatments for patients with severe and devastating conditions. Genesis was founded on groundbreaking molecular ML research and since has established itself as the industry leader in AI for small molecule drug discovery. Our team of accomplished biotech leaders and expert drug hunters joins forces with deep learning researchers and software engineers who are pioneering predictive and generative AI technologies for molecules.

Our team has created the industry's most advanced molecular AI platform called GEMS (Genesis Exploration of Molecular Space), to accelerate and optimize small molecule drug discovery and to enable the discovery of novel first-in-class and best-in-class small molecule drugs for challenging and/or undruggable targets. 

The company has leveraged GEMS to build an internal pipeline with multiple programs against high-value targets, including data-poor and canonically undruggable targets where GEMS is uniquely advantaged. In addition, Genesis has three AI platform collaborations across a range of therapeutic areas, with Gilead Sciences, Eli Lilly, and Genentech.

We raised a $200M series B in August 2023, and have raised over $300M in funding from top technology and biotech investors, including Andreessen Horowitz, Rock Springs Capital, T. Rowe Price, Fidelity, Radical Ventures, NVentures (NVIDIA's VC arm), BlackRock, and Menlo Ventures. 

Genesis is headquartered in Burlingame, CA, with a fully integrated laboratory in San Diego. We are proud to be an inclusive workplace and an Equal Opportunity Employer.