Data underlying the PhD thesis: Computational approaches to dissect immunotherapy response in breast cancer

DOI:10.4121/1881e4a5-55ff-4b51-984b-3d9a2dda1821.v1
The DOI displayed above is for this specific version of this dataset, which is currently the latest. Newer versions may be published in the future. For a link that will always point to the latest version, please use
DOI: 10.4121/1881e4a5-55ff-4b51-984b-3d9a2dda1821
Datacite citation style:
Isaeva, Olga (2025): Data underlying the PhD thesis: Computational approaches to dissect immunotherapy response in breast cancer. Version 1. 4TU.ResearchData. dataset. https://doi.org/10.4121/1881e4a5-55ff-4b51-984b-3d9a2dda1821.v1
Other citation styles (APA, Harvard, MLA, Vancouver, Chicago, IEEE) available at Datacite

Dataset

Code underlying the publications described in the thesis. The dataset includes the Python 3, R and bash scripts for bioinformatic analyses included in the following research papers:


1) Nederlof, I., Isaeva, O.I., de Graaf, M. et al. Neoadjuvant nivolumab or nivolumab plus ipilimumab in early-stage triple-negative breast cancer: a phase 2 adaptive trial. Nat Med 30, 3223–3235 (2024). https://doi.org/10.1038/s41591-024-03249-3

2) Voorwerk, L., Isaeva, O.I., Horlings, H.M. et al. PD-L1 blockade in combination with carboplatin as immune induction in metastatic lobular breast cancer: the GELATO trial. Nat Cancer 4, 535–549 (2023). https://doi.org/10.1038/s43018-023-00542-x

3) Gangaev, A., Ketelaars, S.L.C., Isaeva, O.I. et al. Identification and characterization of a SARS-CoV-2 specific CD8+ T cell response with immunodominant features. Nat Commun 12, 2593 (2021). https://doi.org/10.1038/s41467-021-22811-y

History

  • 2025-02-17 first online, published, posted

Publisher

4TU.ResearchData

Format

Jupyter notebooks.ipynb, scripts/.txt

Organizations

The Netherlands Cancer Institute, Division of Tumor Biology and Immunology

DATA - restricted access

Reason

The data is part of the published papers and should be shared in the same manner as other material of these publications.

End User Licence Agreement

Data will be made available from the corresponding author (m.kok@nki.nl) for academic use, within the limitations of the provided informed consent. Data will not be made available for commercial use. A first response to the request will be sent in <4 weeks. Data requests will be reviewed by the corresponding author and Institutional Review Board of the NKI and after approval, applying researchers will have to sign a data transfer agreement with the NKI.

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