Development

Optimize website and web application performance including loading speed, Core Web Vitals, bundle size, caching strategies, and runtime performance

Query protein-protein and gene interaction databases including STRING, BioGRID, and IntAct via their REST APIs and Python clients. Retrieve interaction networks, confidence scores, and functional enrichment. Use when building protein interaction networks, contextualizing gene lists with known interactions, or retrieving pathway-level interaction data.

Query NCBI Gene Expression Omnibus (GEO) for expression datasets using Biopython Bio.Entrez. Use when finding microarray/RNA-seq datasets, downloading expression data, or linking GEO series to SRA runs.

Search NCBI databases using Biopython Bio.Entrez. Use when finding records by keyword, building complex search queries, discovering database structure, or getting global query counts across databases.

Download large datasets from NCBI efficiently using history server, batching, and rate limiting. Use when performing bulk sequence downloads, handling large query results, or production-scale data retrieval.

Visualize biological networks including gene regulatory networks, protein interaction networks, and co-expression modules using NetworkX, PyVis, and Cytoscape automation. Produces interactive and publication-quality network figures. Use when creating network diagrams from interaction data, GRN results, or co-expression modules.

Query PharmGKB and CPIC for drug-gene interactions, pharmacogenomic annotations, and dosing guidelines. Use when predicting drug response from genetic variants or implementing clinical pharmacogenomics.

Call HLA alleles from NGS data using OptiType, HLA-HD, or arcasHLA for immunogenomics applications. Use when determining HLA genotype for transplant matching, neoantigen prediction, or pharmacogenomic screening.

Query ClinVar for variant pathogenicity classifications, review status, and disease associations via REST API or local VCF. Use when determining clinical significance of variants for diagnostic or research purposes.

Enumerates chemical libraries through reaction SMARTS transformations using RDKit. Generates virtual compound libraries from building blocks using defined chemical reactions with product validation. Use when creating combinatorial libraries or enumerating products from synthetic routes.

Expert in integrating third-party APIs with proper authentication, error handling, rate limiting, and retry logic. Use when integrating REST APIs, GraphQL endpoints, webhooks, or external services. Specializes in OAuth flows, API key management, request/response transformation, and building robust API clients.

Guides and best practices for working with Neon Serverless Postgres. Covers getting started, local development with Neon, choosing a connection method, Neon features, authentication (@neondatabase/auth), PostgREST-style data API (@neondatabase/neon-js), Neon CLI, and Neon's Platform API/SDKs. Use for any Neon-related questions.

Analyzes isoform switching events and functional consequences using IsoformSwitchAnalyzeR. Predicts protein domain changes, NMD sensitivity, ORF alterations, and coding potential shifts between conditions. Use when investigating how splicing changes affect protein function.

Validate alignment quality with insert size distribution, proper pairing rates, GC bias, strand balance, and other post-alignment metrics. Use when verifying alignment data quality before variant calling or quantification.

Implement Zero Trust security model with identity verification, microsegmentation, least privilege access, and continuous monitoring. Use when building secure cloud-native applications.

Prevent Cross-Site Scripting (XSS) attacks through input sanitization, output encoding, and Content Security Policy. Use when handling user-generated content in web applications.

Create wireframes and interactive prototypes to visualize user interfaces and gather feedback early. Use tools and techniques to communicate design ideas before development.

Implement real-time bidirectional communication with WebSockets including connection management, message routing, and scaling. Use when building real-time features, chat systems, live notifications, or collaborative applications.

Implement secure webhook systems for event-driven integrations, including signature verification, retry logic, and delivery guarantees. Use when building third-party integrations, event notifications, or real-time data synchronization.

Implement webhook systems for event-driven integration with retry logic, signature verification, and delivery guarantees. Use when creating event notification systems, integrating with external services, or building event-driven architectures.

Optimize web application performance using code splitting, lazy loading, caching, compression, and monitoring. Use when improving Core Web Vitals and user experience.

Structure Vue 3 applications using Composition API, component organization, and TypeScript. Use when building scalable Vue applications with proper separation of concerns.

Detect unintended visual changes in UI by comparing screenshots across versions. Use for visual regression, screenshot diff, Percy, Chromatic, UI testing, and visual validation.

Write effective user stories that capture requirements from the user's perspective. Create clear stories with detailed acceptance criteria to guide development and define done.