「database」の検索結果

CatColab Schemas - database schema modeling distinguishing entities (tables) from attributes (columns). Foundation for ACSets (Attributed C-Sets) and AlgebraicJulia data structures.

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Access ClinPGx pharmacogenomics data (successor to PharmGKB). Query gene-drug interactions, CPIC guidelines, allele functions, for precision medicine and genotype-guided dosing decisions.

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Query ChEMBL's bioactive molecules and drug discovery data. Search compounds by structure/properties, retrieve bioactivity data (IC50, Ki), find inhibitors, perform SAR studies, for medicinal chemistry.

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CatColab Ologs (Ontology Logs) - category-theoretic knowledge representation where objects are concepts and morphisms are functional relationships. Foundation for database schemas and conceptual modeling.

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Primary Python toolkit for molecular biology. Preferred for Python-based PubMed/NCBI queries (Bio.Entrez), sequence manipulation, file parsing (FASTA, GenBank, FASTQ, PDB), advanced BLAST workflows, structures, phylogenetics. For quick BLAST, use gget. For direct REST API, use pubmed-database.

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Autonomous biomedical AI agent framework for executing complex research tasks across genomics, drug discovery, molecular biology, and clinical analysis. Use this skill when conducting multi-step biomedical research including CRISPR screening design, single-cell RNA-seq analysis, ADMET prediction, GWAS interpretation, rare disease diagnosis, or lab protocol optimization. Leverages LLM reasoning with code execution and integrated biomedical databases.

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Master advanced AgentDB features including QUIC synchronization, multi-database management, custom distance metrics, hybrid search, and distributed systems integration. Use when building distributed AI systems, multi-agent coordination, or advanced vector search applications.

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Advanced AgentDB: QUIC sync, multi-database, hybrid search, MMR, context synthesis.

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Access AlphaFold's 200M+ AI-predicted protein structures. Retrieve structures by UniProt ID, download PDB/mmCIF files, analyze confidence metrics (pLDDT, PAE), for drug discovery and structural biology.

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Attributed C-Sets as algebraic databases. Category-theoretic data structures generalizing graphs and dataframes with Gay.jl color integration.

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ACSets (Attributed C-Sets) for categorical database design and DPO rewriting

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Use when writing asyncio Python code — async/await coroutines, concurrent I/O with asyncio.gather, task creation and cancellation, semaphore rate limiting, producer-consumer queues, async context managers, async generators, WebSocket servers, aiohttp web scraping, async database operations, run_in_executor for blocking calls, or testing async code with pytest-asyncio. Covers FastAPI and aiohttp patterns, synchronization primitives, timeout handling, and common pitfalls like event loop blocking and missing await.

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PostgreSQL database patterns for query optimization, schema design, indexing, and security. Based on Supabase best practices.

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ClickHouse database patterns, query optimization, analytics, and data engineering best practices for high-performance analytical workloads.

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Backend architecture patterns, API design, database optimization, and server-side best practices for Node.js, Express, and Next.js API routes.

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Write integration tests using TestContainers for .NET with xUnit. Covers infrastructure testing with real databases, message queues, and caches in Docker containers instead of mocks.

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Delegates coding/research tasks to the Google Antigravity CLI (`agy`) for external-model execution (Gemini 3.x, Claude Sonnet/Opus 4.6, GPT-OSS). Replaces the broken `collaborating-with-gemini` skill. Use when: (1) External-model delegation via Antigravity, (2) Multi-model prototyping (switch model per call), (3) Backend/logic implementation, (4) Algorithm design and optimization, (5) Bug analysis and debugging, (6) API/database code generation, (7) Code review. Triggers: "delegate to agy", "use Antigravity", "external model", "agy", "Gemini 3.5", "Claude Sonnet 4.6", "GPT-OSS". IMPORTANT: Always request unified diff patches only. Supports multi-turn sessions via SESSION_ID.

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Delegates coding tasks to Codex CLI for prototyping, debugging, and code review. Use when: (1) Backend/logic implementation, (2) Algorithm design and optimization, (3) Bug analysis and debugging, (4) API/database code generation, (5) Code quality review and refactoring. Triggers: "implement algorithm", "debug", "analyze code", "backend task", "API implementation", "optimize performance", "refactor", "generate prototype", "code review". IMPORTANT: Default sandbox="read-only" (analysis/review/patch generation); use sandbox="workspace-write" only when codex must run tests/builds to verify. Always request unified diff patches only. Supports multi-turn sessions via SESSION_ID.

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Use when verifying information (fact, number, quote, event, statement) against authoritative primary sources, or cross-checking a number via one-level metric decomposition (Z = P × Q). Triggers: "verify X", "is this true", "find the original source", "where is this number from", "two sources disagree", "is it true X never did Y". Covers five scenarios: (1) basic truthfulness check, (2) completeness / out-of-context quoting, (3) one-level reasoning verification, (4) negative-statement handling, (5) multi-source conflict side-by-side output. Dig into whitelisted primary sources only (user-supplied files, official websites & databases, authoritative industry sources); cited reports / charts / datasets must be downloaded and read locally to count as verified — if download is blocked, hand the link to the user. If nothing can be found, plainly state "cannot verify" rather than guessing, patching, or citing secondary paraphrases. Always reply in the user's question language.

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Master advanced AgentDB features including QUIC synchronization, multi-database management, custom distance metrics, hybrid search, and distributed systems integration. Use when building distributed AI systems, multi-agent coordination, or advanced vector search applications.

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Elite AI context engineering specialist mastering dynamic context management, vector databases, knowledge graphs, and intelligent memory systems. Orchestrates context across multi-agent workflows, enterprise AI systems, and long-running projects with 2024/2025 best practices. Use PROACTIVELY for complex AI orchestration. Use when: the task directly matches context manager responsibilities within plugin agent-orchestration. Do not use when: a more specific framework or task-focused skill is clearly a better match.

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VNX-specific domain expertise for the intelligence system, central state databases, and dispatch lifecycle. Use when working on quality_intelligence.db / runtime_coordination.db, code_snippets FTS5, snippet_metadata linkage, success_patterns / antipatterns, T0 state projection (t0_state.json), intelligence_injections lifecycle, dispatch → receipt → events → archive flow, central state architecture, project_id propagation across VNX, or any code that reads/writes VNX governance state. Triggers include: editing intelligence injection code, querying central DB for cross-project insights, debugging "intelligence not appearing in T0 state", modifying schema in `schemas/quality_intelligence.sql` or `schemas/runtime_coordination_v*.sql`, working with `scripts/quality_db_init.py` or `scripts/lib/coordination_db.py`.

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VNX-specific domain expertise for the intelligence system, central state databases, and dispatch lifecycle. Use when working on quality_intelligence.db / runtime_coordination.db / dispatch_tracker.db, code_snippets FTS5, snippet_metadata linkage, success_patterns / antipatterns, T0 state projection (t0_state.json), intelligence_injections lifecycle, dispatch → receipt → events → archive flow, central state architecture, project_id propagation across VNX, or any code that reads/writes VNX governance state. Triggers include: editing intelligence injection code, querying central DB for cross-project insights, debugging "intelligence not appearing in T0 state", modifying schema in `schemas/quality_intelligence.sql` or `schemas/runtime_coordination_v*.sql`, working with `scripts/quality_db_init.py` or `scripts/lib/coordination_db.py`.

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Supabase database optimization specialist

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