Search / com.tomesphere/tomesphere
Search 8.5M scientific papers with LLM TLDRs, citations, linked entities, figures, and full text.
v0.1.0 · active · website · descriptor JSON · versions
protogrid{
"mcpServers": {
"tomesphere": {
"type": "http",
"url": "https://mcp.tomesphere.com/api/mcp"
}
}
}claude mcp add --transport http tomesphere https://mcp.tomesphere.com/api/mcp[mcp_servers.tomesphere]
url = "https://mcp.tomesphere.com/api/mcp"
{
"$schema": "https://opencode.ai/config.json",
"mcp": {
"tomesphere": {
"type": "remote",
"url": "https://mcp.tomesphere.com/api/mcp",
"enabled": true
}
}
}{
"mcpServers": {
"tomesphere": {
"type": "http",
"url": "https://mcp.tomesphere.com/api/mcp"
}
},
"deeplink": "cursor://anysphere.cursor-deeplink/mcp/install?name=tomesphere&config=eyJ0eXBlIjoiaHR0cCIsInVybCI6Imh0dHBzOi8vbWNwLnRvbWVzcGhlcmUuY29tL2FwaS9tY3AifQ%3D%3D"
}{
"servers": {
"tomesphere": {
"type": "http",
"url": "https://mcp.tomesphere.com/api/mcp"
}
}
}{
"mcpServers": {
"tomesphere": {
"httpUrl": "https://mcp.tomesphere.com/api/mcp"
}
}
}extensions:
"tomesphere":
enabled: true
name: "tomesphere"
type: streamable_http
uri: "https://mcp.tomesphere.com/api/mcp"
timeout: 300
protocol.modernnewest supported version is 2025-03-26; 2026-07-28 not supported, older versions are deprecated until 2027-07-28protocol.statelessonly applies to 2026-07-28 serversprotocol.transportstreamable HTTPprotocol.list_ttlonly applies to 2026-07-28 serversauth.prm, auth.as_metadata, auth.cimdno remote uses OAuthauth.secret_in_urlno templated URLtools.descriptionsevery tool has a descriptiontools.description_lengthdescriptions are concisetools.schemasevery tool has an object input schematools.annotations9 of 9 tools declare readOnlyHint or destructiveHinttools.directory_hintsno tool declares all four of readOnlyHint, destructiveHint, idempotentHint and openWorldHint; missing: citations (destructiveHint, idempotentHint); get_entities (destructiveHint, idempotentHint); get_paper (destructiveHint, idempotentHint); …tools.token_costabout 1,140 tokens to load every tooltools.api_dumptools are not a one-to-one API dumpstability.changesno tool changes in 30 daysstability.rug_pullno tool changed its meaning under the same namedeps.known_vulns, deps.mcp_sdk_version, deps.resolvableno npm or PyPI packageNo tool definition changes recorded. A server's first observation is its baseline; later probes record what changes.
Checks run on what our credential-free, read-only probes observe; tools are never called and no code audit is performed. How it is computed.
+dns-namespace +website -unreachable(1 failures) ~updated-106d-ago -no-repository
Derived from observable signals (official registry feed and our own credential-free probes); no code audit performed. How it is computed.
| remote | auth | reachable | uptime 30d | p50 | protocol | last ok |
|---|---|---|---|---|---|---|
https://mcp.tomesphere.com/api/mcp streamable-http | none | no (1 failures) | 93% | 271 ms | 2025-03-26 | 2026-10-20 |
citationsread-only | Get papers that cite the given paper (who refers to this work). Use when the user asks 'who cites X', 'what's the impact', or wants follow-up work. Note: 2024+ citation coverage is sparse; indexing in progress. |
get_entitiesread-only | Get the biomedical entities linked to a paper: genes, proteins, chemicals, diseases, species, mutations, cell lines, and clinical-trial (NCT) IDs. Accepts an arXiv ID, PMC ID, or bioRxiv/medRxiv DOI. |
get_figuresread-only | Get a paper's real figure images — URLs, labels, and captions. Most biomedical papers have figures; arXiv papers often don't. Accepts an arXiv ID, PMC ID, or bioRxiv/medRxiv DOI. |
get_full_textread-only | Fetch a paper's full body text as Markdown (methods, results, protocols, inline tables) — use for deep questions the abstract can't answer. Accepts an arXiv ID (2401.12345), a PMC ID (PMC5339222), or a bioRxiv/medRxiv DOI (10.1101/…). |
get_paperread-only | Fetch a paper's full metadata: title, authors, year, abstract, TLDR (LLM-generated), key findings, citation count, GitHub repos, HuggingFace models/datasets, videos, peer reviews, and links. Accepts an arXiv ID (e.g. '2401.12345' or '1706.03762v5') or an OpenAlex Work ID (e.g. 'W4390723197'). Use when the user names a specific paper or pastes an arXiv link. |
get_structureread-only | Resolve a gene/protein name (e.g. 'TP53', 'CD44') or UniProt accession to its 3D structure — returns the UniProt accession + AlphaFold model URL (and PDB when available). Great for a gene named in a paper's entities. |
referencesread-only | Get the papers that this paper cites (its bibliography). Use when the user asks 'what does X cite' or 'show me the references'. |
search_papersread-only | Search 8.5 million academic papers (arXiv + biomedical: PMC / bioRxiv / medRxiv, all disciplines) by topic, keyword, author, or linked entity (gene / protein / disease). Each hit returns id, title, TLDR, type, and links. Use to find papers about a topic, e.g. 'transformer efficiency' or 'CRISPR base editing'. |
similar_papersread-only | Find papers semantically similar to a given paper using SPECTER2 embeddings (trained on scientific-citation triplets). Returns nearest neighbors with TLDR. Use when the user wants 'papers like X' or 'what's adjacent to this work'. |
Schemas: list_tools.
{
"name": "com.tomesphere/tomesphere",
"$schema": "https://static.modelcontextprotocol.io/schemas/2025-07-09/server.schema.json",
"remotes": [
{
"url": "https://mcp.tomesphere.com/api/mcp",
"type": "streamable-http"
}
],
"version": "0.1.0",
"websiteUrl": "https://tomesphere.com/mcp",
"description": "Search 8.5M scientific papers with LLM TLDRs, citations, linked entities, figures, and full text."
}