---
license: agpl-3.0
language:
- en
pretty_name: cBioPortal Public Database
configs:
- config_name: "allele_specific_copy_number"
  data_files:
  - split: latest
    path: "data/allele_specific_copy_number.parquet"
- config_name: "alteration_driver_annotation"
  data_files:
  - split: latest
    path: "data/alteration_driver_annotation.parquet"
- config_name: "cancer_study"
  default: true
  data_files:
  - split: latest
    path: "data/cancer_study.parquet"
- config_name: "cancer_study_tags"
  data_files:
  - split: latest
    path: "data/cancer_study_tags.parquet"
- config_name: "cbioportal_sequence_state"
  data_files:
  - split: latest
    path: "data/cbioportal_sequence_state.parquet"
- config_name: "clinical_attribute_meta"
  data_files:
  - split: latest
    path: "data/clinical_attribute_meta.parquet"
- config_name: "clinical_data_derived"
  data_files:
  - split: latest
    path: "data/clinical_data_derived.parquet"
- config_name: "clinical_event"
  data_files:
  - split: latest
    path: "data/clinical_event.parquet"
- config_name: "clinical_event_data"
  data_files:
  - split: latest
    path: "data/clinical_event_data.parquet"
- config_name: "clinical_event_data_derived"
  data_files:
  - split: latest
    path: "data/clinical_event_data_derived.parquet"
- config_name: "clinical_event_derived"
  data_files:
  - split: latest
    path: "data/clinical_event_derived.parquet"
- config_name: "clinical_patient"
  data_files:
  - split: latest
    path: "data/clinical_patient.parquet"
- config_name: "clinical_sample"
  data_files:
  - split: latest
    path: "data/clinical_sample.parquet"
- config_name: "cna_event"
  data_files:
  - split: latest
    path: "data/cna_event.parquet"
- config_name: "copy_number_seg"
  data_files:
  - split: latest
    path: "data/copy_number_seg.parquet"
- config_name: "copy_number_seg_file"
  data_files:
  - split: latest
    path: "data/copy_number_seg_file.parquet"
- config_name: "gene"
  data_files:
  - split: latest
    path: "data/gene.parquet"
- config_name: "gene_alias"
  data_files:
  - split: latest
    path: "data/gene_alias.parquet"
- config_name: "gene_panel"
  data_files:
  - split: latest
    path: "data/gene_panel.parquet"
- config_name: "gene_panel_list"
  data_files:
  - split: latest
    path: "data/gene_panel_list.parquet"
- config_name: "gene_panel_to_gene_derived"
  data_files:
  - split: latest
    path: "data/gene_panel_to_gene_derived.parquet"
- config_name: "generic_assay_data_derived"
  data_files:
  - split: latest
    path: "data/generic_assay_data_derived.parquet"
- config_name: "generic_assay_meta_derived"
  data_files:
  - split: latest
    path: "data/generic_assay_meta_derived.parquet"
- config_name: "generic_assay_profile_entity_derived"
  data_files:
  - split: latest
    path: "data/generic_assay_profile_entity_derived.parquet"
- config_name: "generic_entity_properties"
  data_files:
  - split: latest
    path: "data/generic_entity_properties.parquet"
- config_name: "geneset"
  data_files:
  - split: latest
    path: "data/geneset.parquet"
- config_name: "geneset_gene"
  data_files:
  - split: latest
    path: "data/geneset_gene.parquet"
- config_name: "geneset_hierarchy_leaf"
  data_files:
  - split: latest
    path: "data/geneset_hierarchy_leaf.parquet"
- config_name: "geneset_hierarchy_node"
  data_files:
  - split: latest
    path: "data/geneset_hierarchy_node.parquet"
- config_name: "genetic_alteration"
  data_files:
  - split: latest
    path: "data/genetic_alteration.parquet"
- config_name: "genetic_alteration_derived"
  data_files:
  - split: latest
    path: "data/genetic_alteration_derived.parquet"
- config_name: "genetic_entity"
  data_files:
  - split: latest
    path: "data/genetic_entity.parquet"
- config_name: "genetic_profile"
  data_files:
  - split: latest
    path: "data/genetic_profile.parquet"
- config_name: "genetic_profile_link"
  data_files:
  - split: latest
    path: "data/genetic_profile_link.parquet"
- config_name: "genetic_profile_samples"
  data_files:
  - split: latest
    path: "data/genetic_profile_samples.parquet"
- config_name: "genomic_event_derived"
  data_files:
  - split: latest
    path: "data/genomic_event_derived.parquet"
- config_name: "gistic"
  data_files:
  - split: latest
    path: "data/gistic.parquet"
- config_name: "gistic_to_gene"
  data_files:
  - split: latest
    path: "data/gistic_to_gene.parquet"
- config_name: "info"
  data_files:
  - split: latest
    path: "data/info.parquet"
- config_name: "mut_sig"
  data_files:
  - split: latest
    path: "data/mut_sig.parquet"
- config_name: "mutation"
  data_files:
  - split: latest
    path: "data/mutation.parquet"
- config_name: "mutation_count_by_keyword"
  data_files:
  - split: latest
    path: "data/mutation_count_by_keyword.parquet"
- config_name: "mutation_derived"
  data_files:
  - split: latest
    path: "data/mutation_derived.parquet"
- config_name: "mutation_event"
  data_files:
  - split: latest
    path: "data/mutation_event.parquet"
- config_name: "patient"
  data_files:
  - split: latest
    path: "data/patient.parquet"
- config_name: "reference_genome"
  data_files:
  - split: latest
    path: "data/reference_genome.parquet"
- config_name: "reference_genome_gene"
  data_files:
  - split: latest
    path: "data/reference_genome_gene.parquet"
- config_name: "resource"
  data_files:
  - split: latest
    path: "data/resource.parquet"
- config_name: "resource_definition"
  data_files:
  - split: latest
    path: "data/resource_definition.parquet"
- config_name: "sample"
  data_files:
  - split: latest
    path: "data/sample.parquet"
- config_name: "sample_cna_event"
  data_files:
  - split: latest
    path: "data/sample_cna_event.parquet"
- config_name: "sample_derived"
  data_files:
  - split: latest
    path: "data/sample_derived.parquet"
- config_name: "sample_list"
  data_files:
  - split: latest
    path: "data/sample_list.parquet"
- config_name: "sample_list_list"
  data_files:
  - split: latest
    path: "data/sample_list_list.parquet"
- config_name: "sample_profile"
  data_files:
  - split: latest
    path: "data/sample_profile.parquet"
- config_name: "sample_to_gene_panel_derived"
  data_files:
  - split: latest
    path: "data/sample_to_gene_panel_derived.parquet"
- config_name: "structural_variant"
  data_files:
  - split: latest
    path: "data/structural_variant.parquet"
- config_name: "type_of_cancer"
  data_files:
  - split: latest
    path: "data/type_of_cancer.parquet"
---

# cBioPortal Public Database

A weekly Parquet snapshot of the public cBioPortal ClickHouse database.
Each database table is exposed as a separate dataset configuration so
it can be browsed independently in the Hugging Face Dataset Viewer.

## Current snapshot

- Database schema version: `3.1.0`
- ClickHouse version: `26.6.1.2439`
- Tables: 58

Only the latest successfully published snapshot is present on `main`.
Source files and past snapshots are available from the
[cBioPortal Public Database Dumps](https://public-db-dump.assets.cbioportal.org/).

## Usage

Choose a table name as the dataset configuration:

```python
from datasets import load_dataset

dataset = load_dataset("cBioPortal/publicDatabase", "cancer_study", split="latest")
```

The repository also contains:

- `manifest.json` with source row counts and version metadata
- `schema.sql` with the portable ClickHouse schema
- `publication.json` with source identity and file integrity metadata

## Contact

For help, contact
[cbioportal@googlegroups.com](mailto:cbioportal@googlegroups.com).