Protocol to set up the CellMinerCDB pharmacogenomics analysis web application with custom cell line data
CellMiner Cross-Database (CellMinerCDB) is an interactive web application for integrating and analyzing molecular and pharmacological data across human cancer cell lines. Here, we detail the setup process, including installing necessary software, preparing compatible datasets, and customizing configuration files; we use sarcoma data as an example. The protocol involves data loading, software configuration, and deployment to enable univariate and multivariate analyses. For complete details on the use and execution of this protocol, please refer to Luna et al.<sup>1</sup> and Tlemsani et al.<sup>2</sup>.
Authors
- Sudhir Varma (ORCID: https://orcid.org/0000-0002-4096-4782)
- Javed Khan (ORCID: https://orcid.org/0000-0002-5858-0488)
- Christine M. Heske (ORCID: https://orcid.org/0000-0003-0956-6249)
- Fathi Elloumi (ORCID: https://orcid.org/0009-0007-7116-508X)
- Paul S. Meltzer (ORCID: https://orcid.org/0000-0003-0963-1768)
- Augustin Luna (ORCID: https://orcid.org/0000-0001-5709-371X)
- Camille Tlemsani (ORCID: https://orcid.org/0000-0002-3342-1704)
- Yves Pommier (ORCID: https://orcid.org/0000-0002-3108-0758)
- Lőrinc Sándor Pongor (ORCID: https://orcid.org/0000-0001-5917-4628)
- Prashant Khandagale (ORCID: https://orcid.org/0000-0002-9751-2189)
- William C. Reinhold (ORCID: https://orcid.org/0000-0001-5513-9323)
Institutions
- Centre National de la Recherche Scientifique (FR)
- National Institutes of Health (US)
- Inserm (FR)
- Université Paris Cité (FR)
- Hôpital Cochin (FR)
- Assistance Publique – Hôpitaux de Paris (FR)
- National Cancer Institute (US)
- Institut Cochin (FR)
- Center for Cancer Research (US)
Publication Details
- Journal
- STAR Protocols
- Published
- 2025-09-25
- DOI
- https://doi.org/10.1016/j.xpro.2025.104076
- Citations
- 2
- Primary Topic
- Cancer Genomics and Diagnostics
- Type
- article
- Field-Weighted Citation Impact
- 1.87