croissant.json

{
  "@context": {
    "@language": "en",
    "@vocab": "https://schema.org/",
    "cr": "http://mlcommons.org/croissant/",
    "rai": "http://mlcommons.org/croissant/RAI/",
    "data": {
      "@id": "cr:data",
      "@type": "@json"
    },
    "dct": "http://purl.org/dc/terms/",
    "examples": {
      "@id": "cr:examples",
      "@type": "@json"
    },
    "extract": "cr:extract",
    "field": "cr:field",
    "fileObject": "cr:fileObject",
    "fileSet": "cr:fileSet",
    "format": "cr:format",
    "includes": "cr:includes",
    "isLiveDataset": "cr:isLiveDataset",
    "jsonPath": "cr:jsonPath",
    "key": "cr:key",
    "md5": "cr:md5",
    "parentField": "cr:parentField",
    "path": "cr:path",
    "recordSet": "cr:recordSet",
    "references": "cr:references",
    "regex": "cr:regex",
    "repeated": "cr:repeated",
    "replace": "cr:replace",
    "sc": "https://schema.org/",
    "separator": "cr:separator",
    "source": "cr:source",
    "subField": "cr:subField",
    "transform": "cr:transform"
  },
  "@type": "sc:Dataset",
  "name": "cp-bg-bench-jump-sd",
  "description": "CP-BG-Bench JUMP view SD (background-masked + density-augmented cell crop). Single-cell Cell Painting tiles from the JUMP-CP consortium, released as one of four paired views (C, S, CD, SD) for the CP-BG-Bench evaluation framework.",
  "conformsTo": "http://mlcommons.org/croissant/1.0",
  "license": "https://creativecommons.org/publicdomain/zero/1.0/",
  "url": "https://huggingface.co/datasets/anonymous/cp-bg-bench-jump",
  "creator": {
    "@type": "Organization",
    "name": "anonymous"
  },
  "publisher": {
    "@type": "Organization",
    "name": "anonymous"
  },
  "citeAs": "Anonymous submission to NeurIPS 2026 Datasets & Benchmarks Track.",
  "datePublished": "2026-05-05",
  "version": "1.0.0",
  "keywords": [
    "Cell Painting",
    "JUMP-CP",
    "single-cell",
    "microscopy",
    "representation learning"
  ],
  "rai:dataCollection": "Single-cell tiles were extracted from the JUMP-CP consortium image release (Chandrasekaran et al.). Cells were segmented at the FOV level, cropped at 150x150 px around the segmented centroid, and resized to 224x224. Per-FOV percentile normalisation was applied before quantisation to uint8.",
  "rai:dataPreprocessingProtocol": "QC filters on (nuc_area, cyto_area, nuc_cyto_ratio) at percentiles [0.025, 0.975]. Per-(perturbation x experimental batch) cell cap of approximately 100 cells. Density-augmented views (CD, SD) encode per-cell local FOV density.",
  "rai:dataUseCases": "Benchmarking representation learning models on single-cell morphology under perturbation; evaluating cell-vs-background contributions to learned representations.",
  "rai:dataLimitations": "Cells from one cell line (U2OS), one assay (Cell Painting), one consortium (JUMP-CP). Channel order is the standard JUMP order and should be confirmed against the upstream pipeline before use. Quantisation to uint8 was applied during tile extraction.",
  "rai:dataBiases": "Compound coverage follows the JUMP-CP Target2 + Compound plate design and is biased toward annotated chemical probes and drug-like molecules. Source (JUMP partner) is a known major covariate that should be controlled in evaluation.",
  "rai:annotationsPerItem": "0",
  "rai:personalSensitiveInformation": "None",
  "distribution": [
    {
      "@type": "cr:FileSet",
      "@id": "shards",
      "name": "shards",
      "description": "WebDataset tar shards.",
      "containedIn": {
        "@id": "https://huggingface.co/datasets/anonymous/cp-bg-bench-jump"
      },
      "encodingFormat": "application/x-tar",
      "includes": "data/shard-*.tar"
    }
  ],
  "recordSet": [
    {
      "@type": "cr:RecordSet",
      "@id": "cells",
      "name": "cells",
      "description": "One row per single-cell tile.",
      "field": [
        {
          "@type": "cr:Field",
          "@id": "cells/row_key",
          "name": "row_key",
          "dataType": "sc:Text",
          "description": "Stable per-cell identifier."
        },
        {
          "@type": "cr:Field",
          "@id": "cells/cell",
          "name": "cell.bin",
          "dataType": "sc:ImageObject",
          "description": "Raw uint8 bytes, shape (5, 224, 224), channel-first. View-specific image content."
        },
        {
          "@type": "cr:Field",
          "@id": "cells/mask",
          "name": "mask.bin",
          "dataType": "sc:ImageObject",
          "description": "Raw uint8 bytes, shape (2, 224, 224), channel-first. Segmentation mask (nucleus, cell)."
        },
        {
          "@type": "cr:Field",
          "@id": "cells/perturbation",
          "name": "perturbation",
          "dataType": "sc:Text",
          "description": "Compound InChIKey."
        },
        {
          "@type": "cr:Field",
          "@id": "cells/source",
          "name": "source",
          "dataType": "sc:Text",
          "description": "JUMP partner identifier."
        },
        {
          "@type": "cr:Field",
          "@id": "cells/plate",
          "name": "plate",
          "dataType": "sc:Text",
          "description": "JUMP plate identifier."
        },
        {
          "@type": "cr:Field",
          "@id": "cells/Metadata_PlateType",
          "name": "Metadata_PlateType",
          "dataType": "sc:Text",
          "description": "TARGET2 or COMPOUND."
        }
      ]
    }
  ]
}