Empirical Neuroscience Knowledge Graph MCP Server — how conscious experience is expressed in biological substrate
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# mcp-neo4j-biomechanisms A schema-bounded MCP server for empirical neuroscience knowledge graphs in Neo4j. The graph maps what peer-reviewed empirical neuroscience has measured about the biological substrate of consciousness — neural structures, circuits, manifold dimensions, lesion patients, falsification conditions, theoretical principles, evidence, studies. Every mutation goes through a tool that validates type, properties, and direction against a registry; there is no raw write-Cypher path. GDS analytics (PageRank, Betweenness, Louvain, WCC) are first-class, because the structure of the connected evidence reveals patterns no individual paper does. ## Install ```bash uv sync --dev ``` Requires Python ≥3.10, Neo4j ≥5.26 with the APOC and GDS plugins enabled, and a fulltext-capable database. ## Run ```bash # stdio (default; for Claude Desktop and similar) uv run mcp-neo4j-biomechanisms --db-url bolt://localhost:7687 # streamable HTTP uv run mcp-neo4j-biomechanisms \ --transport http --server-host 0.0.0.0 --server-port 8000 --server-path /mcp/ ``` All flags have environment-variable equivalents. CLI > env > default. | Flag | Env var | Default | | --------------------- | ---------------------------------- | ------------------------ | | `--db-url` | `NEO4J_URL` / `NEO4J_URI` | `bolt://localhost:7687` | | `--username` | `NEO4J_USERNAME` | `neo4j` | | `--password` | `NEO4J_PASSWORD` | `password` | | `--database` | `NEO4J_DATABASE` | `neo4j` | | `--transport` | `NEO4J_TRANSPORT` | `stdio` | | `--namespace` | `NEO4J_NAMESPACE` | (none) | | `--server-host` | `NEO4J_MCP_SERVER_HOST` | `127.0.0.1` | | `--server-port` | `NEO4J_MCP_SERVE…
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