Datasets:

TabBioMed
/

sc_muraro_celltype

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NOTICE.md ADDED Viewed

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+# Source and license notices: sc_muraro_celltype
+## Muraro human pancreas, GEO GSE85241
+Source: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE85241
+Attribution: Muraro et al. (2016), DOI 10.1016/j.cels.2016.09.002, with representation via XPgogogo/scUnified.
+Source terms: https://www.ncbi.nlm.nih.gov/home/about/policies/#data
+NCBI Molecular Data Usage policy applies to GEO GSE85241. Credit Muraro et al. and the scUnified representation.
+## Modifications
+Classify eight released human pancreas cell-type annotations from Muraro et al. CEL-Seq2 expression; exclude the three epsilon cells.
+TabBioMed preprocessing and stored benchmark partitions are described in metadata.json and https://github.com/AI-sandbox/TabBioMed. No original author endorsement is implied.

README.md ADDED Viewed

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+---
+pretty_name: sc_muraro_celltype
+task_categories:
+- tabular-classification
+tags:
+- tabular
+- biomedical
+- benchmark
+- TabBioMed
+- single-cell
+- classification
+size_categories:
+- 1K<n<10K
+configs:
+- config_name: default
+  data_files:
+  - split: train
+    path: data/train.parquet
+  - split: validation
+    path: data/val.parquet
+  - split: test
+    path: data/test.parquet
+---
+# sc_muraro_celltype
+Part of **TabBioMed** (*TabBioMed: A Large-Scale Benchmark for Biomedical Tabular Learning*), a benchmark of 94 curated biomedical
+tabular datasets. Code, preprocessing and documentation: https://github.com/AI-sandbox/TabBioMed.
+Classify eight released human pancreas cell-type annotations from Muraro et al. CEL-Seq2 expression; exclude the three epsilon cells.
+| Domain | Task | Samples | Features | Classes |
+|---|---|---|---|---|
+| Single-cell | classification | 2,119 | 18,508 | 8 |
+**Splits.** Fixed train/val/test split (1483/318/318 rows).
+## Files
+- `data/**.parquet`: one row per sample. `row_idx` is the row index in the original
+  TabBioMed array; `f_<i>[_<name>]` are the features (in order); `target` (or `target_<j>`
+  for multi-target tasks) is the label. Categorical feature indices (0-based, among the
+  features): `[]`. Missing values are stored as nulls.
+- `metadata.json`: TabBioMed task metadata (task type, categorical indices, source, description).
+- `feature_names.json`: original feature names, in column order.
+- `sample_metadata.csv`: per-row provenance (identifiers, source annotations); not features.
+- `feature_metadata.csv`: per-feature annotations.
+```python
+from datasets import load_dataset
+ds = load_dataset("TabBioMed/sc_muraro_celltype")
+```
+A Croissant (1.1) description with Responsible-AI fields is distributed with the
+TabBioMed release.
+## Source and license
+- [Muraro human pancreas, GEO GSE85241](https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE85241). Muraro et al. (2016), DOI 10.1016/j.cels.2016.09.002, with representation via XPgogogo/scUnified. [Source terms](https://www.ncbi.nlm.nih.gov/home/about/policies/#data). NCBI Molecular Data Usage policy applies to GEO GSE85241. Credit Muraro et al. and the scUnified representation.
+See `NOTICE.md` for attribution and modifications.
+## Citation
+```bibtex
+@inproceedings{tabbiomed2026,
+  title     = {TabBioMed: A Large-Scale Benchmark for Biomedical Tabular Learning},
+  author    = {Mateo Bernad{\'o}, Pau and Polapragada, Saivenkata Nagavyjayanthi and Bonet, David and Arbiol Rakuljic, Pol and Mogas Pladevall, Laia and Comajoan Cara, Mar{\c{c}}al and Gonzalez Ferrer, Jesus and Abante, Jordi and Mas Montserrat, Daniel and Haussler, David and Ioannidis, Alexander G.},
+  booktitle = {Advances in Neural Information Processing Systems (NeurIPS), Evaluations and Datasets Track},
+  year      = {2026}
+}
+```

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metadata.json ADDED Viewed

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+{
+  "name": "sc_muraro_celltype",
+  "task": "classification",
+  "num_classes": 8,
+  "classes": [
+    "acinar",
+    "alpha",
+    "beta",
+    "delta",
+    "ductal",
+    "endothelial",
+    "gamma",
+    "mesenchymal"
+  ],
+  "num_samples": 2119,
+  "num_features": 18508,
+  "cat_idx": [],
+  "label": "Single-Cell",
+  "sub_labels": [
+    "RNA-seq"
+  ],
+  "description": "Classify eight released human pancreas cell-type annotations from Muraro et al. CEL-Seq2 expression; exclude the three epsilon cells.",
+  "source": "Muraro et al. (2016), human pancreas CEL-Seq2 via scUnified",
+  "source_url": "https://github.com/XPgogogo/scUnified/blob/main/Meuro_human_Pancreas_cell.h5",
+  "publication_doi": "10.1016/j.cels.2016.09.002",
+  "split_strategy": "fixed",
+  "split_unit": "cell",
+  "curation_protocol": "singlecell_source_annotations_cell_split_v1",
+  "source_manifest_sha256": "d44877b86813d101d473dfaae4caf699a00fbabebdc36bb540d106c685f10310",
+  "feature_representation": "source_released_expression",
+  "feature_selection": "training_nonconstant_genes",
+  "sample_metadata_file": "sample_metadata.csv",
+  "feature_metadata_file": "feature_metadata.csv",
+  "READY": true,
+  "license": null,
+  "license_url": null,
+  "source_licenses": [
+    {
+      "id": "muraro",
+      "title": "Muraro human pancreas, GEO GSE85241",
+      "url": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE85241",
+      "license": null,
+      "license_url": null,
+      "terms_url": "https://www.ncbi.nlm.nih.gov/home/about/policies/#data"
+    }
+  ]
+}

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