# BRCA1 expression in TCGA breast cancer samples

[Browse datasets](<../../>) 

`datamonger:brca1@1` · Registry `1.2.0`. Default version in this registry. 

Prepared directly from official TCGA Agilent Level 3 measurements hosted by the NCI GDC. Contains 533 primary tumors, three metastatic tumors, 17,322 complete gene expression predictors, and response y (BRCA1 expression). Values are log2 lowess-normalized Cy5/Cy3 ratios collapsed by gene symbol. Retains official precision, gene symbols, and sample identifiers, with no extra centering or imputation. Samples and predictors are sorted lexicographically. The public sample\_id is metadata excluded from model features. Iowa's added gene annotations are omitted. 

<a id="dimensions-and-tasks"></a>

## Dimensions and tasks

| Task | Type | Split | Samples | Predictors |
| --- | --- | --- | --- | --- |
| default | regression | — | 536 | 17,322 |

Predictor counts follow each task's feature selection and exclude targets and identifiers. Sample counts are reported separately for each split. 

<a id="retrieve"></a>

## Retrieve

These examples pin both the dataset version and the registry's exact index. An uncached dataset requires network access to its source. The CLI retrieves verified artifacts. The language clients also decode them. 

<a id="python"></a>

### Python

```python
from datamonger import Registry, fetch_data

registry = Registry(
    release="1.2.0",
    index_sha256="4b4e6aeb71ad7e53c3596a725e62008c76c27a59ac68c53a02432898ec8b6f21",
    index_url="https://github.com/jolars/datamonger/releases/download/registry-v1.2.0/index.json",
)
data = fetch_data("datamonger:brca1@1", registry=registry)
```

<a id="r"></a>

### R

```r
library(datamonger)

registry <- registry_selector(
  release = "1.2.0",
  index_sha256 = "4b4e6aeb71ad7e53c3596a725e62008c76c27a59ac68c53a02432898ec8b6f21",
  index_url = "https://github.com/jolars/datamonger/releases/download/registry-v1.2.0/index.json"
)
data <- fetch_data("datamonger:brca1@1", registry = registry)
```

<a id="julia"></a>

### Julia

```julia
using Datamonger

registry = registry_selector(
    "1.2.0",
    "4b4e6aeb71ad7e53c3596a725e62008c76c27a59ac68c53a02432898ec8b6f21",
    "https://github.com/jolars/datamonger/releases/download/registry-v1.2.0/index.json",
)
data = fetch_data("datamonger:brca1@1"; registry=registry)
```

<a id="cli"></a>

### CLI

```sh
cat > datamonger-registry.json <<'JSON'
{
  "index_sha256": "4b4e6aeb71ad7e53c3596a725e62008c76c27a59ac68c53a02432898ec8b6f21",
  "index_url": "https://github.com/jolars/datamonger/releases/download/registry-v1.2.0/index.json",
  "release": "1.2.0",
  "schema_version": 1
}
JSON
datamonger --selector datamonger-registry.json fetch 'datamonger:brca1@1'
```

<a id="representation-and-variables"></a>

## Representation and variables

Tabular data with a dense representation. Decoder: `delimited-text` version 1. 

| Component | Kind | Type | Shape |
| --- | --- | --- | --- |
| sample\_id | vector | string | 536 |
| 15E1.2 | vector | float64 | 536 |
| 2'-PDE | vector | float64 | 536 |
| 7A5 | vector | float64 | 536 |
| A1BG | vector | float64 | 536 |
| A2BP1 | vector | float64 | 536 |
| A2M | vector | float64 | 536 |
| A2ML1 | vector | float64 | 536 |
| A3GALT2 | vector | float64 | 536 |
| A4GALT | vector | float64 | 536 |
| A4GNT | vector | float64 | 536 |
| AAAS | vector | float64 | 536 |
| AACS | vector | float64 | 536 |
| AADAC | vector | float64 | 536 |
| AADACL1 | vector | float64 | 536 |
| AADACL2 | vector | float64 | 536 |
| AADACL3 | vector | float64 | 536 |
| AADAT | vector | float64 | 536 |
| AAK1 | vector | float64 | 536 |
| AAMP | vector | float64 | 536 |
| AANAT | vector | float64 | 536 |
| AARS | vector | float64 | 536 |
| AARS2 | vector | float64 | 536 |
| AARSD1 | vector | float64 | 536 |
| AASDH | vector | float64 | 536 |
| AASDHPPT | vector | float64 | 536 |
| AASS | vector | float64 | 536 |
| AATF | vector | float64 | 536 |
| AATK | vector | float64 | 536 |
| ABAT | vector | float64 | 536 |

Showing 30 of 17,324 components. The [complete registry record](<../../../assets/509f7a7e4f7fad557376cd94c0384df38144850b5c5bcb9030fd02f7fbed983f.bin>) contains every variable name and task binding. 

<a id="preprocessing"></a>

## Preprocessing

Preprocessing history is not recorded in this registry release. 

<a id="provenance-and-citation"></a>

## Provenance and citation

Provider: Datamonger; derived from official TCGA data at the NCI GDC. Upstream name: TCGA BRCA Agilent G4502A-07-3 Level 3. Retrieved: 2026-10-16. 

[Original source](<https://gdc.cancer.gov/about-data/publications/brca_2012>) 

Authors: The Cancer Genome Atlas Network, University of North Carolina Cancer Genomic Characterization Center. 

The Cancer Genome Atlas Network (2012). Comprehensive molecular portraits of human breast tumours. Nature 490:61-70. [https://doi.org/10.1038/nature11412](<https://doi.org/10.1038/nature11412>). Underlying TCGA Level 3 gene expression archive at the NCI GDC: f0b74706-6b9e-4430-931d-9f233b4ac67c. Datamonger portable representation, version 1: [https://doi.org/10.5281/zenodo.23418110](<https://doi.org/10.5281/zenodo.23418110>). 

<a id="license"></a>

## License

Known (see terms) 

[License information](<https://gdc.cancer.gov/analyze-data/data-analysis-policies>) 

Official TCGA open-access Agilent Level 3 measurements, retrieved from the NCI GDC publication archive. GDC policies permit analysis and publication of open-access data, require attribution, and prohibit attempts to reidentify participants. This automated review treats publishing the portable numeric extract as publication under those source policies. No SPDX license or public-domain dedication is inferred. Iowa's RDS and added annotations are not preparation inputs. 

<a id="artifacts"></a>

## Artifacts

Total download: 35.5 MiB. Sizes describe the distributed files, including any compression. 

| Artifact | Format | Compression | Size | Distribution | Preservation |
| --- | --- | --- | --- | --- | --- |
| data | csv | gzip | 35.5 MiB | mirror | durable |

[data: mirror](<https://zenodo.org/api/records/23418110/files/data.csv.gz/content>) 

[Preservation deposit](<https://doi.org/10.5281/zenodo.23418110>) 

<a id="versions-in-this-registry"></a>

## Versions in this registry

[1](<1>) (default) 

<a id="registry-record"></a>

## Registry record

Download the [complete registry record](<../../../assets/509f7a7e4f7fad557376cd94c0384df38144850b5c5bcb9030fd02f7fbed983f.bin>), [registry selector](<../../../assets/8672628c645b749fa42711c6bd53ffd2b65138f37352b9d6531e466c9b9d26d0.bin>), or [full registry index](<https://github.com/jolars/datamonger/releases/download/registry-v1.2.0/index.json>). 

Index SHA-256: `4b4e6aeb71ad7e53c3596a725e62008c76c27a59ac68c53a02432898ec8b6f21`.