{
  "schemaVersion": "1.0.0",
  "accession": "E-MTAB-14406",
  "title": "Single cell RNA sequencing data of the in vitro lifecycle of the kinetoplastid parasite Trypanosoma cruzi",
  "retrieved": "2026-07-26",
  "public": true,
  "biostudies": {
    "studyUrl": "https://www.ebi.ac.uk/biostudies/arrayexpress/studies/E-MTAB-14406",
    "apiUrl": "https://www.ebi.ac.uk/biostudies/api/v1/studies/E-MTAB-14406",
    "httpDirectory": "https://ftp.ebi.ac.uk/biostudies/fire/E-MTAB-/406/E-MTAB-14406",
    "files": [
      {
        "name": "E-MTAB-14406.idf.txt",
        "type": "Investigation Description Format metadata",
        "bytes": 12435,
        "sha256": "1a3ff02e8ba2ae2c94d4d0ae1a29bd3972ccd9cfeeac5d8d29a36c0085b8f4a2",
        "url": "https://ftp.ebi.ac.uk/biostudies/fire/E-MTAB-/406/E-MTAB-14406/Files/E-MTAB-14406.idf.txt"
      },
      {
        "name": "E-MTAB-14406.sdrf.txt",
        "type": "Sample and Data Relationship Format metadata",
        "bytes": 66974,
        "sha256": "f95f4d5470f2208d24db827147bf3302a61c453cbc208301023d078af12a8c54",
        "url": "https://ftp.ebi.ac.uk/biostudies/fire/E-MTAB-/406/E-MTAB-14406/Files/E-MTAB-14406.sdrf.txt"
      }
    ]
  },
  "ena": {
    "studyAccession": "ERP163729",
    "studyUrl": "https://www.ebi.ac.uk/ena/browser/view/ERP163729",
    "sourceSamples": 8,
    "experiments": 8,
    "runs": 25,
    "fastqEntries": 79,
    "scope": "Samples 1–7 form the published lifecycle atlas; sample 8 is the independent 48-hour amastigote validation dataset."
  },
  "derivedRunManifest": {
    "url": "/api/tcruzi-runs",
    "downloadUrl": "/api/tcruzi-runs?download=1",
    "derivation": "Direct field-preserving aggregation of the verified SDRF rows by Source Name, ENA experiment and ENA run.",
    "verification": {
      "officialSdrfRows": 79,
      "portalFastqEntries": 79,
      "missingRows": 0,
      "extraRows": 0
    }
  },
  "processedData": {
    "authorAtlasUrl": "https://cellatlas-cxg.mvls.gla.ac.uk/view/Trypanosoma_cruzi_inVitro_cellatlas.h5ad/",
    "authorCodeUrl": "https://github.com/No2Ross/TcruziAtlas",
    "paperUrl": "https://doi.org/10.1038/s41467-026-73098-w",
    "ebiProcessedCountMatrix": false,
    "portalRawCountMatrix": false,
    "status": "The BioStudies record exposes IDF/SDRF metadata and raw-read links through ENA, but no processed count matrix. The author CELLxGENE public API serves the active regressed/scaled matrix. The paper reports a normalized log1p matrix in AnnData .raw; TrypCell Atlas does not substitute or reconstruct it."
  }
}