Belleau, Pascal, Deschênes, Astrid, Tuveson, David A, Krasnitz, Alexander (August 2025) Inference of Genetic Ancestry from Cancer-Derived Molecular Data with RAIDS. In: UNSPECIFIED UNSPECIFIED, pp. 153-176.
Abstract
There has recently been increasing appreciation of ancestral effects on cancer genotypes and phenotypes. Consequently, the need has grown for ancestry annotation of cancer-derived molecular data. In response, we created a computational tool termed RAIDS (Robust Ancestry Inference using Data Synthesis). RAIDS is designed to infer genetic ancestry using as input sequence data from a variety of molecular protocols, even in the absence of matching cancer-free genotypes of the patient. Implemented as an R language package, RAIDS is available from the Bioconductor repository. Here we describe functionalities of RAIDS, provide instructions for its installation, give examples of its usage, and explain the interpretation of its output. While RAIDS is being actively developed, the guidance provided here is expected to apply to future refined and expanded versions of this software tool.
| Item Type: | Book Section |
|---|---|
| Subjects: | bioinformatics diseases & disorders diseases & disorders > neoplasms biotechnology bioinformatics > computational biology |
| CSHL Authors: | |
| Communities: | CSHL Cancer Center Program > Cancer Genetics and Genomics Program CSHL labs > Krasnitz lab CSHL labs > Tuveson lab CSHL Cancer Center Program |
| SWORD Depositor: | CSHL Elements |
| Depositing User: | CSHL Elements |
| Date: | 9 August 2025 |
| Date Deposited: | 11 Aug 2025 12:21 |
| Last Modified: | 11 Aug 2025 12:21 |
| URI: | https://repository.cshl.edu/id/eprint/41934 |
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