Associate Scientist II, Molecular & Computational Biology

Tonix Pharmaceutical-posted 3 months ago
$60,000 - $90,000/Yr
Full-time • Entry Level
Frederick, MD
51-100 employees
Chemical Manufacturing
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Tonix Pharmaceuticals is seeking a highly motivated Associate Scientist to join our multidisciplinary R&D team at the Frederick Research & Development Center. This role integrates computational protein structure analysis with hands-on molecular biology and protein biochemistry. The successful candidate will contribute to host-directed therapeutic discovery, antiviral platforms, and vaccine design by combining AI/ML-based protein modeling with molecular biology and protein science to generate, express, and analyze protein targets.

  • Perform protein structure modeling and design using platforms such as AlphaFold2/3, ESM, RFdiffusion, ProteinMPNN, and NetMHC.
  • Build and refine bioinformatics workflows for large-scale sequence and structural analysis of host and viral proteins.
  • Perform molecular cloning, PCR, DNA and RNA isolation, bacterial transformation, and mutagenesis to generate expression constructs.
  • Carry out protein expression and purification followed by protein characterization.
  • Collaborate with Tonix's imaging and cell biology teams to translate computational predictions into testable hypotheses in assays and animal models.
  • Contribute to the development of user-friendly computational pipelines and visualization tools for internal scientists.
  • Document and communicate results in reports, regulatory filings, and presentations to internal teams, collaborators, and external partners.
  • Maintain awareness of emerging computational biology technologies to enhance Tonix's drug discovery capabilities.
  • B.S. or M.S. in Microbiology, Biochemistry, Bioinformatics, Computational Biology, or related field.
  • Hands-on experience with protein structure prediction and computational protein design tools.
  • Familiarity with core molecular biology and protein biochemistry methods (PCR, cloning, bacterial expression, Western blotting).
  • Strong communication skills and ability to work in cross-functional teams within Tonix's integrated discovery pipeline.
  • Experience with cloud computing platforms (Google Cloud, AWS) for large-scale protein modeling.
  • Exposure to machine learning approaches in protein design and immunology.
  • Prior experience with protein engineering for therapeutic applications.
  • Track record of contributions to publications, posters, or conference presentations.
  • Proficiency in Python, especially ML/AI packages. Experience in Linux operating systems and shell programming is desirable.
  • Medical, Dental & Vision Insurance, Basic and Voluntary Life and AD&D Insurance, Short- and Long-Term Disability Insurance, Flexible Spending Accounts, Health Savings Account, and Employee Assistance Programs.
  • Pet Insurance.
  • Retirement Savings 401k with company match and annual discretionary stock options.
  • Generous Paid Time Off, Sick Time, & Paid Holidays.
  • Career Development and Training.
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