RT Journal Article
SR Electronic
T1 Exploring Current Challenges and Perspectives for Automatic Reconstruction of Clonal Evolution
JF Cancer Genomics - Proteomics
JO Cancer Genomics Proteomics
FD International Institute of Anticancer Research
SP 194
OP 204
DO 10.21873/cgp.20314
VO 19
IS 2
A1 SARAH SANDMANN
A1 SILJA RICHTER
A1 XIAOYI JIANG
A1 JULIAN VARGHESE
YR 2022
UL http://cgp.iiarjournals.org/content/19/2/194.abstract
AB Background/Aim: In the field of cancer research, reconstructing clonal evolution is of major interest. The technique provides new insights for analysis and prediction of tumor development. However, reconstruction based on mutational data is characterized by several challenges. Materials and Methods: By performing extensive literature research, we identified 51 currently available tools for reconstructing clonal evolution. By analyzing two cancer data sets (n=21), we investigated the applicability and performance of each tool. Results: Seventeen out of 51 tools could be applied to our data. Correct clustering of variants can be observed for 4 patients in the presence of ≤3 clusters and ≥5 time points. Correct phylogenetic trees are determined for 10 patients. Accurate visualization is possible, by applying adjustments to the original algorithms. Conclusion: Despite bearing considerable potential, automatic reconstruction of clonal evolution remains challenging. To replace tedious manual reconstruction, further research including systematic error analyses using simulation tools needs to be conducted.