Job Details

Remote Biomedical Knowledge Systems Engineer (Part-Time, 20 hrs/week)

Contract: 12 Months
Job ID: 36697593
Location: Fully Remote (U.S. candidates preferred)
Schedule: Part-Time - 20 hoursper week

About the Role

Sigma Systems is seeking an exceptionally specialized Biomedical Knowledge Systems Engineer to support and modernize a mission-critical scientific knowledge discovery platform used in biomedical and regulatory research.

This is a hands-on, senior-level engineering role requiring deep expertise across biomedical informatics, clinical trial data, FDA regulatory systems, GenAI-powered semantic search, and legacy system modernization. The ideal candidate will be comfortable owning complex systems end-to-end and working independently in a highly regulated, data-intensive environment.

Key Responsibilities

Legacy Biomedical Systems Ownership

• Independently manage, maintain, refactor, and modernize a custom semantic scientific search platform
• Troubleshoot and enhance legacy biomedical informatics applications with complex architectures

• Provide operational, administrative, and development support for:
  
  • Gene-Disease Association Knowledgebases
  • FDA Label Search systems
• Maintain integrity of specialized biomedical data models and workflows

• Architect and execute complex document and vector database migrations
• Perform large-scale migrations from MarkLogic to MongoDB
• Ensure full metadata fidelity, auditability, and regulatory compliance

• Design and implement GenAI-powered applications for:
  
  • Semantic scientific search
  • Automated knowledge extraction
  • Cross-source biomedical data synthesis
• Build and manage LLM and agentic frameworks, NLP pipelines, and knowledge graphs
• Develop modern front-end interfaces using Vue.js (or equivalent)

• Lead automated conversion of clinical trial results into FDA-compliant submission templates
• Integrate data from FDA, AACT, and ClinicalTrials.gov

• Support secure, compliant deployments in AWS
• Work with EC2, Elastic Beanstalk, Secrets Manager
• Advise on performance tuning, interoperability, and hybrid cloud best practices

• Bachelor's degree in Computer Science, Bioinformatics, Biomedical Informatics, or related field
• 3+ years of dedicated experience in:
  
  • Biomedical software development
  • Specialized biomedical system administration
• Mandatory hands-on expertise with BOTH:
  
  • MarkLogic
  • MongoDB
  • Including real-world migration experience between the two
• Proven experience working with:
  
  • FDA data systems
  • AACT
  • ClinicalTrials.gov
• Strong knowledge of FDA regulatory data standards
• Direct experience with NLM biomedical data sources, including:
  
  • PubMed
  • PubMed Central (PMC)
  • Gene Expression Omnibus (GEO)
• Production-level experience with:
  
  • NLP
  • GenAI / LLMs
  • Agentic AI frameworks
  • Semantic search and knowledge graph construction
• Full-stack engineering expertise:
  
  • Frontend: Vue.js or similar
  • Backend APIs and microservices
  • Cloud-based scientific workflows
• Experience deploying applications in regulated environments

• Prior ownership or stewardship of custom-built biomedical information systems
• Experience supporting or contributing to FDA regulatory platforms
• Work involving scientific publication analytics or biomedical literature mining