Data · dataset · 2020
Metadata associated with the published article: Prediction of the functional impact of missense variants in BRCA1 and BRCA2 with BRCA-ML
Listed in DataCite
Description
Summary
The data described in this metadata record underlie the figures and supplementary tables in the related manuscript. The data are in silico predictions of missense variants of uncertain significance (VUS) in the BRCA1 and BRCA2 genes (BReast CAncer genes), generated by training and evaluating hundreds of machine learning algorithms based on results from validated functional assays to better predict missense variants in these genes as damaging or neutral.
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Data description
The primary data output of the related publication is Supplemental Data Set 1 (as it appears in the article), which contains all possible SNVs (single nucleotide variants) in both BRCA1 and BRCA2 genes. In the GitHub repository and the zip file that appears as part of this metadata record, this data output is named as TableS2.tsv, in the following location: BRCA-ML\results\TableS2.tsv. The AutoML approach was employed, with the R (version 3.4.2) CRAN - Package h2o.ai (version: 3.16.0.2).
This is available at CRAN.R-project.org/package=h2o (Accessed: 29th January 2018). Data access The data and code are available at GitHub here: github.com/Steven-N-Hart/BRCA-MLAdditionally, a static version of the data and code as it was at the time the related publication was published is available in the zipped folder attached to this metadata record. The data is shared under an MIT Licence.
Links
Where it is published
- Repository landing page springernature.figshare.com/articles/Metadata_associated_with_the_published_article_Predic… ↗
landing page · from DataCite
- Repository landing page springernature.figshare.com/articles/Metadata_associated_with_the_published_article_Predic… ↗
landing page · from DataCite
- DOI doi.org/10.6084/m9.figshare.12018429 ↗
DOI / persistent id · from DataCite
- DOI doi.org/10.6084/m9.figshare.12018429.v1 ↗
DOI / persistent id · from DataCite
Documentation and papers
- MIT License opensource.org/licenses/MIT ↗
license · from DataCite
- IsSupplementTo 10.1038/s41523-020-0159-x doi.org/10.1038/s41523-020-0159-x ↗
publication · from DataCite
Catalogue records · 4
- DataCite API api.datacite.org/dois/10.6084/m9.figshare.12018429.v1 ↗
metadata API · from DataCite
- DataCite API api.datacite.org/dois/10.6084/m9.figshare.12018429 ↗
metadata API · from DataCite
- DataCite Commons commons.datacite.org/doi.org/10.6084/m9.figshare.12018429.v1 ↗
catalogue entry · from DataCite
- DataCite Commons commons.datacite.org/doi.org/10.6084/m9.figshare.12018429 ↗
catalogue entry · from DataCite
Topics
- Stated by source
- Basic medicine · Basic medicine · Biological sciences · Biological sciences · Clinical medicine · Clinical medicine
Provenance · 2 source records, 16 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| DataCite | 10.6084/m9.figshare.12018429 | 15 d ago | JSON v1 |
| DataCite | 10.6084/m9.figshare.12018429.v1 | 15 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · DataCite | connector:datacite@1.0.0 | /data/attributes/rightsList |
| byte_size | source · DataCite | connector:datacite@1.0.0 | |
| concepts[disease].local:disease:cancer | mapping · DataCite | vocabulary-mapper@1.0.0 | keywords['Cancer'] |
| concepts[disease].local:disease:cancer | mapping · DataCite | vocabulary-mapper@1.0.0 | keywords['Cancer'] |
| concepts[field].fos:basic-medicine | source · DataCite | connector:datacite@1.0.0 | |
| concepts[field].fos:basic-medicine | source · DataCite | connector:datacite@1.0.0 | |
| concepts[field].fos:biological-sciences | source · DataCite | connector:datacite@1.0.0 | |
| concepts[field].fos:biological-sciences | source · DataCite | connector:datacite@1.0.0 | |
| concepts[field].fos:clinical-medicine | source · DataCite | connector:datacite@1.0.0 | |
| concepts[field].fos:clinical-medicine | source · DataCite | connector:datacite@1.0.0 | |
| created_date | source · DataCite | connector:datacite@1.0.0 | |
| description | source · DataCite | connector:datacite@1.0.0 | /data/attributes/descriptions |
| license | source · DataCite | connector:datacite@1.0.0 | /data/attributes/rightsList |
| publication_date | source · DataCite | connector:datacite@1.0.0 | /data/attributes/dates |
| title | source · DataCite | connector:datacite@1.0.0 | /data/attributes/titles/0/title |
| updated_date | source · DataCite | connector:datacite@1.0.0 |