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Join Metaphore Biotechnologies: Computational Protein Design and Machine Learning Scientist
Company Overview:
Founded by Flagship Pioneering in 2021, Metaphore Biotechnologies is on a mission to revolutionize drug discovery. Leveraging our groundbreaking MIMIC™ platform, we integrate machine learning with molecular mimicry to engineer therapeutics that trigger specific biological responses, targeting areas previously deemed untouchable. Recently, we announced a $600M research collaboration with Novo Nordisk to develop next-generation therapeutics for obesity management.
As a Flagship Pioneering venture, Metaphore Biotechnologies benefits from a legacy of innovation, joining the ranks of successful companies like Moderna Therapeutics (NASDAQ: MRNA), Editas Medicine (NASDAQ: EDIT), Omega Therapeutics (NASDAQ: OMGA), and several others. Flagship's unique hypothesis-driven approach has catalyzed over 100 scientific ventures since 2000. In 2021, Flagship was globally recognized, ranking 12th on Fortune’s “Change the World” list for its positive social and environmental impact.
Position Summary:
Metaphore Biotechnologies is looking for a passionate Computational Protein Design and Machine Learning Scientist to join our dynamic team. This role involves working at the intersection of physics-based and machine learning-based protein design to address challenging therapeutic biomolecule discovery and optimization tasks. As a key member of the modeling team, you will engage in tasks like de novo design, multi-parameter optimization, inverse folding, and sequence-structure-function modeling.
Close collaboration with Metaphore’s preclinical and platform teams will be essential to optimally develop molecules and delineate training and validation data for method development. The ideal candidate should have robust experience in molecular modeling, computational biology, and advanced deep learning techniques.
Key Responsibilities:
- Design, implement, and evaluate methodologies for structure-based protein design.
- Collaborate with the preclinical team to design and optimize molecules for therapeutic program goals.
- Work with platform scientists to define and generate training and validation data for optimal method development.
- Stay updated on advancements in macromolecular modeling and machine learning.
Qualifications:
- Ph.D. in Computational Biology, Bioengineering, Computer Science, or related fields. Post-graduate experience is a plus.
- Experience in macromolecular modeling, docking, and protein design. Familiarity with Rosetta is highly preferred; Molecular Dynamics experience is a plus.
- Proficiency in modeling and designing antibodies or antibody-like molecules.
- Expertise in modern deep learning protein design tools, such as AlphaFold2, RoseTTAFold, RFdiffusion.
- Experience developing machine learning models in protein design or protein property prediction.
- Familiarity with advanced deep learning architectures, including Diffusion models, Transformers, and Graph Neural Networks.
- Proficiency in Python and PyTorch.
- Experience with Git, Docker, cloud computing, and software development best practices. Familiarity with ML experiment tracking, model registries, and workflow orchestration tools like Nextflow is a plus.
- Outstanding communication, organizational, and problem-solving skills.
At Flagship, we recognize that perfect candidates don’t exist. If you possess some of the qualifications but not all, we encourage you to apply regardless. We value diverse and inclusive teams and are eager to learn about your unique background and skill set.
Important Information for Recruitment & Staffing Agencies:
Flagship Pioneering and its affiliated Flagship Lab companies (collectively, "FSP") do not accept unsolicited resumes from any source other than candidates. Unsolicited resumes submitted by recruitment or staffing agencies to FSP or its employees will become the property of FSP and no referral fees will be paid. This applies unless there is an existing agreement signed by Flagship Pioneering’s internal Talent Acquisition team.
Company: Flagship Pioneering, Inc.
Job Title: Scientist, Computational Protein Design
