Cortexa research tool·genomics·epigenomics

ENCODE Search Histone Experiments

Search ENCODE histone ChIP-seq experiments by histone modification mark, biosample, or organism. Returns experiment accessions, histone marks (H3K4me3, H3K27ac, H3K27me3, H3K36me3, H3K4me1, H3K9me3), biosample summaries, and metadata. Use this to find histone modification profiling data for specific marks or tissues. Common marks: H3K4me3 (active promoters), H3K27ac (active enhancers), H3K27me3 (polycomb repression), H3K4me1 (poised enhancers), H3K36me3 (gene bodies), H3K9me3 (heterochromatin).

Livelast probed 2026-05-01 01:00Z· 424msCortexa

Status

The most recent probe succeeded. Safe to call from the agent today.

Last probed: 1d ago
Last success: 1d ago
Last latency: 424ms

Schema

JSON Schema the agent (or your API call) must match.

{
  "additionalProperties": false,
  "properties": {
    "biosample": {
      "description": "Alias for biosample_term_name. Biosample (tissue or cell line, e.g., 'liver', 'K562').",
      "type": [
        "string",
        "null"
      ]
    },
    "biosample_term": {
      "description": "Alias for biosample_term_name. Biosample tissue or cell line (e.g., \"breast epithelium\", \"liver\", \"K562\").",
      "type": [
        "string",
        "null"
      ]
    },
    "biosample_term_name": {
      "description": "Biosample name from ENCODE ontology (cell lines or tissues, NOT disease names). Examples: 'K562', 'HepG2', 'GM12878', 'liver', 'brain'. For disease-specific data, search by relevant cell lines (e.g., K562/MOLM-13 for AML). Leave empty to search all.",
      "type": [
        "string",
        "null"
      ]
    },
    "cell_type": {
      "description": "Alias for biosample_term_name. Cell type or tissue (e.g., 'GM12878', 'K562', 'liver', 'brain').",
      "type": [
        "string",
        "null"
      ]
    },
    "histone_mark": {
      "description": "Histone modification mark to filter by (e.g., 'H3K4me3', 'H3K27ac', 'H3K27me3', 'H3K4me1', 'H3K36me3', 'H3K9me3'). Leave empty to search all histone marks.",
      "type": [
        "string",
        "null"
      ]
    },
    "limit": {
      "default": 25,
      "description": "Maximum number of results to return (1-100).",
      "maximum": 100,
      "minimum": 1,
      "type": "integer"
    },
    "organism": {
      "default": "Homo sapiens",
      "description": "Organism scientific name (e.g., 'Homo sapiens', 'Mus musculus').",
      "type": "string"
    },
    "target": {
      "description": "Alias for histone_mark. Histone modification mark (e.g., 'H3K27ac', 'H3K4me3').",
      "type": [
        "string",
        "null"
      ]
    },
    "tissue": {
      "description": "Alias for biosample_term_name. Tissue or cell line (e.g., 'liver', 'brain', 'breast epithelium', 'MCF-7').",
      "type": [
        "string",
        "null"
      ]
    }
  },
  "type": "object"
}

Examples (1)

Default ENCODE Search Histone Experiments call

public-safeinput

{
  "limit": 3
}

Expected response keys: success

Anonymous-safe example. Rate-limited; no sign-in required.

Identifiers

Catalog ID: tu_ENCODE_search_histone_experiments
Tool name: ENCODE_search_histone_experiments
Added: 2026-05-01 00:58Z
Tags: tooluniverse

ENCODE Search Histone Experiments

Livelast probed 2026-05-01 01:00Z· 424msCortexa

Schema

JSON Schema the agent (or your API call) must match.

{ "additionalProperties": false, "properties": { "biosample": { "description": "Alias for biosample_term_name. Biosample (tissue or cell line, e.g., 'liver', 'K562').", "type": [ "string", "null" ] }, "biosample_term": { "description": "Alias for biosample_term_name. Biosample tissue or cell line (e.g., \"breast epithelium\", \"liver\", \"K562\").", "type": [ "string", "null" ] }, "biosample_term_name": { "description": "Biosample name from ENCODE ontology (cell lines or tissues, NOT disease names). Examples: 'K562', 'HepG2', 'GM12878', 'liver', 'brain'. For disease-specific data, search by relevant cell lines (e.g., K562/MOLM-13 for AML). Leave empty to search all.", "type": [ "string", "null" ] }, "cell_type": { "description": "Alias for biosample_term_name. Cell type or tissue (e.g., 'GM12878', 'K562', 'liver', 'brain').", "type": [ "string", "null" ] }, "histone_mark": { "description": "Histone modification mark to filter by (e.g., 'H3K4me3', 'H3K27ac', 'H3K27me3', 'H3K4me1', 'H3K36me3', 'H3K9me3'). Leave empty to search all histone marks.", "type": [ "string", "null" ] }, "limit": { "default": 25, "description": "Maximum number of results to return (1-100).", "maximum": 100, "minimum": 1, "type": "integer" }, "organism": { "default": "Homo sapiens", "description": "Organism scientific name (e.g., 'Homo sapiens', 'Mus musculus').", "type": "string" }, "target": { "description": "Alias for histone_mark. Histone modification mark (e.g., 'H3K27ac', 'H3K4me3').", "type": [ "string", "null" ] }, "tissue": { "description": "Alias for biosample_term_name. Tissue or cell line (e.g., 'liver', 'brain', 'breast epithelium', 'MCF-7').", "type": [ "string", "null" ] } }, "type": "object" }