← The evidence ledger
Evidence row 265699
Observed , by probe.mcp/1.
- Kind
- mcp.tools
- About
- endpoint cb8df46e-bc6b-4873-bee0-effa66092df9
- Recorded
- Previous row
- None: the first of its kind about this subject
- Body SHA-256
- 8aaef1e62913ce2dd927cc8dc2614510d9cb9733fff143ec1a18175ef493099f
- Leaf
- 0xe51e07cb82ae1b26c61a2b6a6451084a9cae6c298f1fa4e8b4e5424c0cadee7e
What was observed
{
"count": 13,
"tools": [
{
"description": "Dataset version, corpus snapshot date, counts, evidence-code legend and how to cite the dataset. When the Atlas does not report the contested and conflicting counts itself, derived_counts adds them, computed from the relations, so they can be compared with find_contradictions.",
"inputSchema": {
"properties": {},
"type": "object"
},
"name": "atlas_about"
},
{
"description": "Direct curated relations between two entities (either direction) with full cards for the supporting and conflicting studies. Answers questions such as \"what is the evidence that A acts on B?\". A study that repeats within the answer is sent in full once and afterwards as a short card with full_card_in.",
"inputSchema": {
"$schema": "http://json-schema.org/draft-07/schema#",
"properties": {
"a": {
"type": "string"
},
"b": {
"type": "string"
},
"dedupe": {
"default": true,
"description": "Send a repeated study in full only once. Pass false for a full card every time.",
"type": "boolean"
}
},
"required": [
"a",
"b"
],
"type": "object"
},
"name": "evidence_between"
},
{
"description": "Relations the Atlas marks as contested or that carry conflicting studies, with both sides of the evidence. status says which; breakdown splits the total. A contested relation with no conflicting study listed is flagged conflicting_studies_missing; relations named in its note or boundary are shown in named_in_text (a mention is not evidence). Paged: pass next_offset as offset for the rest. Optionally limited to one entity.",
"inputSchema": {
"$schema": "http://json-schema.org/draft-07/schema#",
"properties": {
"brief": {
"default": false,
"description": "Shorten the long boundary and note text (text_truncated is set); get_relation has the full text.",
"type": "boolean"
},
"dedupe": {
"default": true,
"description": "Send a repeated study in full only once. Pass false for a full card every time.",
"type": "boolean"
},
"entity": {
"type": "string"
},
"limit": {
"default": 20,
"description": "Maximum 50; a larger value is capped at 50.",
"maximum": 9007199254740991,
"minimum": 1,
"type": "integer"
},
"offset": {
"default": 0,
"description": "For the next page: pass next_offset from the previous answer.",
"maximum": 9007199254740991,
"minimum": 0,
"type": "integer"
},
"only_contested": {
"default": false,
"description": "Keep only relations the Atlas flags contested, not those that merely carry conflicting studies.",
"type": "boolean"
}
},
"type": "object"
},
"name": "find_contradictions"
},
{
"description": "Signed, evidence-linked pathway relations (claims such as \"Rheb activates mTORC1\"). Filter by an entity on either end, by source/target, effect, contested status or minimum strength of the best supporting evidence.",
"inputSchema": {
"$schema": "http://json-schema.org/draft-07/schema#",
"properties": {
"contested_only": {
"description": "Only relations marked contested or with conflicting studies",
"type": "boolean"
},
"effect": {
"enum": [
"activates",
"inhibits",
"binds",
"recruits",
"required-for",
"context-dependent",
"no-effect"
],
"type": "string"
},
"entity": {
"description": "Entity on either end of the relation",
"type": "string"
},
"limit": {
"default": 20,
"description": "Maximum 50; a larger value is capped at 50.",
"maximum": 9007199254740991,
"minimum": 1,
"type": "integer"
},
"offset": {
"default": 0,
"description": "For the next page: pass next_offset from the previous answer.",
"maximum": 9007199254740991,
"minimum": 0,
"type": "integer"
},
"source": {
"type": "string"
},
"strongest_at_least": {
"description": "Keep relations whose best supporting study is at least this code in the order S > H > A > M",
"enum": [
"S",
"H",
"A",
"M",
"R",
"PP",
"RT"
],
"type": "string"
},
"target": {
"type": "string"
}
},
"type": "object"
},
"name": "find_relations"
},
{
"description": "One profiled author by profile id (\"claudio-de-virgilio\"), full name, author-list form or ORCID: lab, role, profile URL and short cards of their studies in the Atlas.",
"inputSchema": {
"$schema": "http://json-schema.org/draft-07/schema#",
"properties": {
"author": {
"description": "e.g. \"Claudio De Virgilio\", \"De Virgilio C\", \"claudio-de-virgilio\"",
"type": "string"
},
"id": {
"description": "Alias of author.",
"type": "string"
}
},
"type": "object"
},
"name": "get_author"
},
{
"description": "One entity (gene/protein, complex, drug, disease, process...) with its linked studies as short cards (first studies_limit) and every pathway relation it takes part in as a one-line claim. Accepts an id, a name or a synonym.",
"inputSchema": {
"$schema": "http://json-schema.org/draft-07/schema#",
"properties": {
"entity": {
"description": "e.g. \"mTORC1\", \"Rheb\", \"rapamycin\"",
"type": "string"
},
"id": {
"description": "Alias of entity.",
"type": "string"
},
"studies_limit": {
"default": 25,
"description": "Maximum 50; a larger value is capped at 50.",
"maximum": 9007199254740991,
"minimum": 0,
"type": "integer"
}
},
"type": "object"
},
"name": "get_entity"
},
{
"description": "One open or frontier question by ID (e.g. \"H1\", \"F2\"): the gap, what changed, what is still open, how it could be tested, linked studies.",
"inputSchema": {
"$schema": "http://json-schema.org/draft-07/schema#",
"properties": {
"id": {
"type": "string"
}
},
"required": [
"id"
],
"type": "object"
},
"name": "get_question"
},
{
"description": "One pathway relation by ID (e.g. \"RHEB-MTORC1\"): mechanism, boundary conditions, confidence, supporting and conflicting studies.",
"inputSchema": {
"$schema": "http://json-schema.org/draft-07/schema#",
"properties": {
"id": {
"type": "string"
}
},
"required": [
"id"
],
"type": "object"
},
"name": "get_relation"
},
{
"description": "Full record for one study by Atlas ID (e.g. \"SAB1994\"), PMID, DOI or PMCID: abstract excerpt, extracted findings, linked entities, the relations it supports or contradicts, related open questions.",
"inputSchema": {
"$schema": "http://json-schema.org/draft-07/schema#",
"properties": {
"doi": {
"description": "Alias of sid, for a DOI.",
"type": "string"
},
"id": {
"description": "Alias of sid.",
"type": "string"
},
"pmcid": {
"description": "Alias of sid, for a PMCID.",
"type": "string"
},
"pmid": {
"description": "Alias of sid, for a PMID.",
"type": "string"
},
"sid": {
"description": "Atlas study ID (\"SAB1994\"), PMID (\"23716719\"), DOI or PMCID",
"type": "string"
},
"study_id": {
"description": "Alias of sid.",
"type": "string"
}
},
"type": "object"
},
"name": "get_study"
},
{
"description": "The Atlas's open questions (evidence gaps with testable hypotheses) and frontier questions. Paged. By default still_open is shortened at a sentence boundary (still_open_truncated); get_question has the full text, or pass brief=false.",
"inputSchema": {
"$schema": "http://json-schema.org/draft-07/schema#",
"properties": {
"brief": {
"default": true,
"description": "Shorten still_open; false returns the full text.",
"type": "boolean"
},
"kind": {
"enum": [
"open-question",
"frontier"
],
"type": "string"
},
"limit": {
"default": 20,
"description": "Maximum 50; a larger value is capped at 50.",
"maximum": 9007199254740991,
"minimum": 1,
"type": "integer"
},
"offset": {
"default": 0,
"description": "For the next page: pass next_offset from the previous answer.",
"maximum": 9007199254740991,
"minimum": 0,
"type": "integer"
},
"query": {
"description": "Keywords to find questions by their title, gap, hypothesis or what is still open, e.g. \"rapamycin immune\".",
"type": "string"
}
},
"type": "object"
},
"name": "list_questions"
},
{
"description": "People in the Atlas by full name (\"Claudio De Virgilio\"), author-list form (\"De Virgilio C\"), ORCID or lab. results are authors with a profile page (full name, ORCID, lab, their study IDs); in_author_lists are matching names in study author lists without a profile.",
"inputSchema": {
"$schema": "http://json-schema.org/draft-07/schema#",
"properties": {
"limit": {
"default": 20,
"description": "Maximum 50; a larger value is capped at 50.",
"maximum": 9007199254740991,
"minimum": 1,
"type": "integer"
},
"offset": {
"default": 0,
"description": "For the next page: pass next_offset from the previous answer.",
"maximum": 9007199254740991,
"minimum": 0,
"type": "integer"
},
"query": {
"description": "A name, ORCID or lab, e.g. \"Sabatini\", \"Claudio De Virgilio\", \"Fribourg\"",
"type": "string"
}
},
"required": [
"query"
],
"type": "object"
},
"name": "search_authors"
},
{
"description": "Find genes/proteins, complexes, drugs, diseases, processes, nutrients and outcomes by name or synonym. Each result says where it matched (match_field: name, synonym or description); use match=\"name\" to leave out description-only hits.",
"inputSchema": {
"$schema": "http://json-schema.org/draft-07/schema#",
"properties": {
"limit": {
"default": 20,
"description": "Maximum 100; a larger value is capped at 100.",
"maximum": 9007199254740991,
"minimum": 1,
"type": "integer"
},
"match": {
"default": "any",
"description": "\"any\" also searches descriptions; \"name\" searches names and synonyms only.",
"enum": [
"any",
"name"
],
"type": "string"
},
"offset": {
"default": 0,
"description": "For the next page: pass next_offset from the previous answer.",
"maximum": 9007199254740991,
"minimum": 0,
"type": "integer"
},
"query": {
"description": "Name or synonym, e.g. \"raptor\", \"sirolimus\"",
"type": "string"
},
"type": {
"description": "Optional type filter, e.g. \"Drug\", \"Gene/Protein\", \"Disease\"",
"type": "string"
}
},
"required": [
"query"
],
"type": "object"
},
"name": "search_entities"
},
{
"description": "Search the curated studies by keywords, optionally filtered by evidence code, a linked entity (gene, drug, disease...) and year range. Searches title, finding, authors (author-list form \"Sabatini DM\" and full names of profiled authors), PMID, DOI, PMCID, linked entities and their synonyms, journal, model system and the abstract excerpt. A query that is a PMID or DOI returns that study. Returns summary records with evidence codes and URLs.",
"inputSchema": {
"$schema": "http://json-schema.org/draft-07/schema#",
"properties": {
"entity": {
"description": "Only studies linked to this entity (name, synonym or id), e.g. \"Rheb\".",
"type": "string"
},
"evidence_code": {
"description": "Keep only these evidence codes, e.g. [\"H\",\"S\"] for human evidence.",
"items": {
"enum": [
"S",
"H",
"A",
"M",
"R",
"PP",
"RT"
],
"type": "string"
},
"type": "array"
},
"limit": {
"default": 20,
"description": "Maximum 50; a larger value is capped at 50.",
"maximum": 9007199254740991,
"minimum": 1,
"type": "integer"
},
"offset": {
"default": 0,
"description": "For the next page: pass next_offset from the previous answer.",
"maximum": 9007199254740991,
"minimum": 0,
"type": "integer"
},
"query": {
"description": "Keywords, e.g. \"rapamycin lifespan mice\", a person (\"Claudio De Virgilio\"), a PMID or a DOI. Omit to list by filters only.",
"type": "string"
},
"year_from": {
"maximum": 9007199254740991,
"minimum": -10000,
"type": "integer"
},
"year_to": {
"maximum": 9007199254740991,
"minimum": -10000,
"type": "integer"
}
},
"type": "object"
},
"name": "search_studies"
}
]
}What the leaf hashes
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Fold these into the leaf in order, hashing each sorted pair with keccak256, to reach the root of (296695 rows).
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- Day root
- 0xf43e8dcc3d451a4788b26be904c55e8c4c0fa75c9666796c51db38d37e2c0df8
- Chained
- 0x702d5ac508f08b0d1accf36af25822d8e5660367494edd17a642fb61e158a57a
- Published
- On Arc Testnet, block 69251483: 0x495162f8936e19f0039918feebe6c307f327cd6bf8c37219620b1970041fa9ae