Reconstructing cancer phylogenies using Pairtree, a clone tree reconstruction algorithm Journal Article
| Authors: | Kulman, E.; Wintersinger, J.; Morris, Q. |
| Article Title: | Reconstructing cancer phylogenies using Pairtree, a clone tree reconstruction algorithm |
| Abstract: | Pairtree is a clone tree reconstruction algorithm that uses somatic point mutations to build clone trees describing the evolutionary history of individual cancers. Using the Pairtree software package, we describe steps to preprocess somatic mutation data, cluster mutations into subclones, search for clone trees, and visualize clone trees. Pairtree builds clone trees using up to 100 samples from a single cancer with at least 30 subclonal populations. For complete details on the use and execution of this protocol, please refer to Wintersinger et al. (2022). © 2022 The Authors |
| Keywords: | genetics; cancer; computer sciences |
| Journal Title: | STAR Protocols |
| Volume: | 3 |
| Issue: | 4 |
| ISSN: | 2666-1667 |
| Publisher: | Cell Press |
| Date Published: | 2022-12-16 |
| Start Page: | 101706 |
| Language: | English |
| DOI: | 10.1016/j.xpro.2022.101706 |
| PROVIDER: | scopus |
| PMCID: | PMC9494285 |
| PUBMED: | 36129821 |
| DOI/URL: | |
| Notes: | Article -- Export Date: 3 October 2022 -- Source: Scopus |
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