Molecular Epidemiologist/Bioinformatician

Molecular Epidemiologist/Bioinformatician – Atlanta, GA Seneca Federal Health is seeking a Molecular Epidemiologist/Bioinformatician in Atlanta, GA. Responsibilities Molecular Network Generation: Execute and maintain high-throughput transmission network mapping via HIV-TRACE, operating precise genetic distance thresholds (0.015 for Subtype B, 0.045 for non-B strains) against the national sequence database. Phylodynamic & Evolutionary Analysis: Orchestrate complex evolutionary tracking models using BEAST and TimeTree to isolate priority molecular cluster growth vectors, ancestral lineages, and patterns of drug resistance mutation scoring via Stanford Sierra. Cluster Notification Routing: Enforce strict execution of the cluster notification workflow. Package and deliver priority molecular cluster identification sets to the Senior Epidemiologist (SE) within 1 business day of detection threshold violations. Geospatial Clusters Scans: Develop and execute automated SaTScan Bernoulli spatial scans and ArcGIS Pro workflows, linking eHARS surveillance case records with sequence network tables to visualize localized geographic outcroppings. Prioritization Log Enforcement: Maintain a detailed, audit-ready Cluster Prioritization Log tracking unique IDs, detection times, regional concentrations, growth indices, SE review completions, and subsequent COR transmission windows. Modernized Pipeline Ingestion: Design and implement automated sequence ingestion pipelines within the CDC EDAV Databricks cloud platform, embedding explicit schema enforcement, data constraints, and Delta Lake tracking structures. Parallel-Run Model Validation: Lead technical execution of parallel-run code validations, ensuring newly migrated cloud Python/pySpark pipelines achieve identical reproducibility when evaluated against historical legacy codebases. Git Version Repository Control: Enforce strict version control across all bioinformatics scripts using GitHub/GitLab, establishing standard code annotations, README metadata files, and comprehensive peer-review checks before trunk merges. Assurance of Confidentiality Mapping: Apply mandatory Section 308(d) spatial suppression guidelines to all molecular cluster visualizations and geographic maps, ensuring low-density data grids remain protected against identity extraction risks. Basic Qualifications Master's degree in Bioinformatics, Computational Biology, Molecular Epidemiology, or a heavily computational quantitative discipline required; Ph.D. preferred. Ability to obtain and/or maintain an active favorable Tier I background check 5+ years of applied molecular epidemiology or public health bioinformatics pipeline experience within clinical, academic, or federal research networks. 3+ years of hands‑on production experience analyzing viral sequence data using advanced phylogenetic and transmission network methodologies. Expert level proficiency operating specialized bioinformatics utilities including HIV-TRACE, BEAST (v1.10/v2.7), Stanford Sierra, COMET, and TimeTree. Demonstrated experience engineering automated Python and R pipelines within secure cloud architectures (Azure Government, Databricks, AWS GovCloud). AWS Certified Data Analytics or AWS Certified Solutions Architect preferred. Microsoft Azure Data Scientist Associate or Azure Data Engineer Associate Certification preferred. Active International Society for Computational Biology (ISCB) or ASM Membership with an established peer‑reviewed publication record preferred. Equal Opportunity Statement Seneca Holdings provides equal employment opportunities to all employees and applicants without regard to race, color, religion, sex/gender, sexual orientation, national origin, age, disability, marital status, genetic information and/or predisposing genetic characteristics, victim of domestic violence status, veteran status, or other protected class status. This policy applies to all terms and conditions of employment, including, but not limited to, hiring, placement, promotion, termination, layoff, recall, transfer, leave of absence, compensation and training. The Company also prohibits retaliation against any employee who exercises his or her rights under applicable anti‑discrimination laws. Notwithstanding the foregoing, the Company does give hiring preference to Seneca or Native individuals. Veterans with expertise in these areas are highly encouraged to apply. #J-18808-Ljbffr Seneca Holdings