Biomedical Knowledge Systems Engineer

20 hrs a week, pay ranges between 35-40/hr based on experience

Summary:
We are seeking an exceptionally specialized Biomedical Knowledge Systems Engineer to oversee the ongoing maintenance, modernization, and enhancement of a suite of legacy and contemporary applications that power our scientific knowledge discovery platform. The ideal candidate will possess a rare blend of deep technical proficiency-spanning backend and frontend development, advanced knowledge of clinical trial, regulatory, and biomedical data ecosystems, and hands-on capability in building and administrating intricate GenAI workflows for semantic scientific search and analytics. This role demands mastery over unique legacy systems and databases, fluency in modern GenAI techniques and agentic frameworks, and demonstrated ability to work at the intersection of life science data informatics and scalable software engineering.

Responsibilities:
Legacy System Ownership: Independently manage, maintain, and evolve our custom semantic scientific search platform, performing high-level refactoring, troubleshooting, and architectural upgrades as necessary.

Administrative Stewardship: Provide comprehensive administrative, operational, and development support for legacy biomedical informatics systems, including the Gene-Disease Association Knowledgebase and FDA Label Search, requiring extensive familiarity with their unique data models and workflows.

Expert Data Migration: Architect and execute complex data migrations, including document and vector database transformations from MarkLogic to MongoDB, while ensuring absolute preservation of biomedical metadata fidelity and auditability in compliance with regulatory standards.

GenAI-Driven Knowledge Discovery: Design, build, and optimize scalable GenAI-based applications (leveraging frameworks such as vue.js) to expand automated scientific knowledge extraction, semantic enrichment, and cross-source information synthesis.

Regulatory Analytics: Provide analytical and technical leadership on automated conversion of clinical trial results into regulatory-compliant FDA submission templates, integrating data from multiple sources.

Continuous Architecture Evolution: Lead ongoing modernization strategies by advising on best-practices for system interoperability, performance tuning, and secure deployment in hybrid cloud environments.
Requirements:
Bachelor’s degree in Computer Science, Bioinformatics, or a related discipline, with a minimum of 3 years’ dedicated experience in software development and highly specialized biomedical system administration.

Mandatory extensive knowledge and hands-on experience with both MarkLogic and MongoDB document databases, including direct experience with complex data migration scenarios between these platforms.

Demonstrated proficiency in advanced AWS services (Secrets Manager, Elastic Beanstalk, EC2) for secure, compliant application deployment and management within regulated environments.

In-depth, practical experience with data curation, retrieval, and management using datasets and APIs from FDA, AACT, and clinicaltrials.gov—including expertise in regulatory data standards and integration techniques.

Proven expertise with NLM biomedical data infrastructures (including PubMed, PMC, and Gene Expression Omnibus), encompassing large-scale automated ingestion, normalization, and semantic integration of publication and experimental data.

Direct, production-level experience with NLP, GenAI, LLM agentic frameworks applied to real-world biomedical use-cases, demonstrating the ability to build custom pipelines for semantic search and knowledge graph construction.

Highly proficient in full-stack engineering, with significant track record in modern frontend frameworks (including vue.js or equivalent), backend API design, and cloud-based microservices architecture tailored to scientific workflows.

Preferred Qualifications:
Prior stewardship of unique and custom-built biomedical information systems with complex, multi-sourced data pipelines.

Documented contributions to FDA regulatory information systems and prior collaborative work with scientific publication analytics.

Note: Candidates with only partial exposure to these highly specialized technologies and data domains will not be considered.
Bachelor’s degree in Computer Science, Bioinformatics, or a related discipline, with a minimum of 3 years’ dedicated experience in software development and highly specialized biomedical system administration.