com.tomesphere/tomesphere
com.tomesphere/tomesphere · v0.1.0 · MCP 2025-03-26
Search 8.5M scientific papers with LLM TLDRs, citations, linked entities, figures, and full text.
Reachability
reachable
checked 2026-07-14 03:18 UTC
Registry status active
Tools pinned 9
121f55deb10a
Tools last changed
unchanged since first capture 2026-07-14
Provenance
Registry namespace com.tomesphere
(domain verified by the official registry)
Website
https://tomesphere.com/mcp
Remote endpoints
https://mcp.tomesphere.com/api/mcp (streamable-http)
Observed changes
| When (UTC) | Event | Detail |
|---|---|---|
| 2026-07-14 03:18 | first capture | 9 tools pinned |
Pinned tool definitions (9)
| Tool | Description |
|---|---|
| search_papers | 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... |
| get_paper | 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... |
| similar_papers | 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'. |
| citations | 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. |
| references | Get the papers that this paper cites (its bibliography). Use when the user asks 'what does X cite' or 'show me the references'. |
| get_full_text | 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_figures | 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_entities | 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_structure | 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. |
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