NGS Bioinformatics Support Specialist

• Establish and/or ensure adherence to tracking methods for the status of scientific projects, new requests & features, tasks & milestones, and other project management material in support of reporting, value articulation and visibility of responsiveness.
• Work with project managers and technical teams to implement and enforce these tracking mechanisms.
• Become an expert of the user-facing system and its upstream and downstream dependencies.
• Provide “white glove service” to users on both standard sequence workflows and ad-hoc analyses, including sequence annotation, clustering, germlining, enrichment analysis, and more.
• Understand  discovery processes to effectively assist scientists.
• Develop and execute test plans to ensure product quality.
• Generate test data and document test results.
• Develop user guides, requirements, training videos, etc. Keep them up to date.
• Retrieve assay data from databases or directly from scientists.
• Apply normalization and various aggregation to the data.
• Pivot the data into multiple formats required for downstream analyses.
• Analyze historical NGS data (e.g. V-gene usage) to understand data behavior and impact on projects.
• Propose better thresholds and/or methods based on detailed evaluations.
• Provide on-demand data analyses as part of white glove service to answer scientific questions.
• Develop reusable NGS analyses in Claude or Jupyter Notebook, such as post-processing of ENPICOM results.
• Create a dashboard to monitor system metrics and health, including system usage, project count, contamination rate, and unfinished projects. Proactively detect anomalies and send alerts.
• Create packages using ENPICOM API and SDK to automate common use cases.
• Become expert on ENPICOM API/SDK and use them to address cases not easily solved by the GUI.
• Integrate our system with upstream metadata providers and downstream data repositories as part of an automated cohesive data ecosystem.
• Clearly define integration requirements and bring discipline to the team to adhere to the specs (e.g. need awareness before making changes).
• Utilize AI to streamline user support, documentation, issue tracking, reporting, etc.

Qualifications

• Education: BS or MS in Bioinformatics, Computer Science, or related field.
• 3-5 years of relevant work experience.
• Hybrid work: 3 days onsite in San Diego + 2 days remote.
• B cell biology, antibody discovery, immunization and library-based discovery, protein engineering, molecular biology, NGS sample prep, Illumina MiSeq, high-throughput antibody screening.
• Python, NGS data analysis (preferably BCR/TCR), Claude, Github, Unix, Bash, API, dashboard apps (Plotly/Dash, Streamlit, Spotfire, Tableau, R Shiny), Scientific data analysis (normalization, multi-point analysis, etc), AWS, Jupyter, Docker
• AI-assisted project management, system administration, scientific user support, requirements gathering, software testing (unit/integration/regression), documentation (requirements & processes), support ticket management, Agile methodology.