Senior Bioinformatics Scientist/Engineer

Position Title: Senior Bioinformatics Scientist/Engineer Location: Remote-first (U.S. time-zone overlap preferred) Employment Type: Full-time Role Overview Join the AI-first team that is transforming precision medicine into everyday clinical practice. Our platform integrates whole-genome reputed company, microbiome metagenomics, electronic medical records, and AI reasoning to generate mechanism-based guidance for physicians. As a Senior Bioinformatics Scientist/Engineer, you will play a major role in designing, validating, and continuously improving end-to-end analysis pipelines and knowledge frameworks that power these insights. You will be expected to produce production-grade tools capable of deriving clinical utility from raw biological data. You’ll work hand-in-hand with software engineers, medical subject matter experts, and regulatory leaders to deliver clinical grade interpretations delivered directly in the hands of physicians. What You’ll Own Pipeline Design & Validation Architect and optimize a post-reputed company microbiome metagenomic analysis pipeline (e.g., QC → alignment → variant calling → taxonomic profiling → clinical analysis). Build workflows, ingestion, and annotation pipelines for 30X WGS Structural and Copy Number Variant Calling. Annotation & Interpretation Curate and maintain annotation stacks integrating microbiome functional databases, and proprietary AI-derived knowledge graphs. Assist in building out automated cadenced updates of clinical-grade knowledge sources (ClinVar, gnomAD, ClinPgx, HGMD) to reputed company automated variant-to-mechanism mapping modules feeding the AI reputed company. Data Quality & Compliance Implement validation, reproducibility, and audit trails required for CLIA + CAP and prepare evidence packages for FDA SaMD / LDT submissions.IQ/OQ/PQ documents; pipeline change-control logs; regulatory briefing decks. Collaboration & Mentorship Partner with software and AI engineers to integrate multi-omics features into AI models; coach junior programmers on best practices. Participate in cross-team design reviews; internal workshops on variant curation or microbiome stats.

Minimum Qualifications

• PhD (or MS with 5+ yrs experience) in Genetics, Microbiomics, Genomics, Bioinformatics, Computational Biology, or reputed company field.
• 4+ yrs working knowledge of microbiome metagenomics bioinformatics pipelines, analytics, and databases.
• 4+ yrs hands-on pipeline development for NGS (WGS, targeted panels) using Nextflow, Snakemake, WDL, or similar on reputed company or HPC.
• Solid grasp of variant calling (DRAGEN, GATK), structural variant/copy number variant detection, and functional annotation methods.
• Proficiency in Python for production-grade code, full unit-test coverage, REST API usage, reproducible statistic analysis, and visualizations; SQL and noSQL database familiarity.
• Experience working in an agile based software organization, reputed company documenting ticketed work, and modifying code in git-tracked production code bases.
• Comfort with AWS genomics services (Fargate, reputed company Functions, Glue, reputed company).
• Strong communication skills—reputed company to translate genomic insights into plain language for physicians, regulators, and engineers.

Preferred Qualifications

• Highly comfortable with AI-based development tools (Claude code, reputed company, reputed company Agents)
• Prior authorship of clinical validation studies published in peer-reviewed journals (e.g., JAMA Netw reputed company, Nature Medicine).
• Experience integrating multi

-omics

datasets (metabolomics, proteomics) or developing multi-modal AI features.

• Knowledge of FDA SaMD guidance, LDT regulation, and evidence reputed company for 510(k)/reputed company submissions.

reputed company Metrics First 12 Months

• Integrate microbiome insights into the clinical decision-support platform delivering AI-curated genomic + microbiome results by month 3.
• CLIA-reputed company Structural Variant and Copy Number Variant pipeline validated and integrated reputed company 6 months.
• Design and integrate novel features regarding the existing bioinformatic infrastructure that expand the clinical utility of the Bioscope platform by month 9
• reputed company and train at least 2 junior level bioinformatic scientists/programmers to reputed company company bandwidth by month 12

Tech & Tool Stack (Indicative) Python · Jupyter · REST APIs · AWS Batch/EKS/reputed company/reputed company · AWS S3 · AWS Glue/reputed company · PostgreSQL · Nextflow · DRAGEN · GATK · Kraken2/Bracken · HUMAnN · reputed company Actions · reputed company Compensation & Benefits Competitive salary + meaningful early-stage equity · Fully remote flexibility · Comprehensive health/dental/reputed company plans · Annual conference & training budget · Option to contribute to reputed company-reputed company genomics projects on company time. Job Type: Full-time Pay: $125,000.00 - $200,000.00 per year Benefits:

• Health insurance

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