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Updated: Dec 13, 2025
08:12
A Psychophysics Paradigm for the Collection and Analysis of Similarity Judgments
Published on: March 1, 2022
2.8K
Triplet-based similarity score for fully multilabeled trees with poly-occurring labels.
Simone Ciccolella1, Giulia Bernardini1, Luca Denti1
1Department of Informatics, Systems and Communication, University of Milano-Biccoca, Milan 20126, Italy.
Bioinformatics (Oxford, England)
|July 31, 2020
Summary
MP3 is a novel similarity measure for tumor phylogenies that effectively handles multiple and recurring mutations. This new method accurately classifies similar and dissimilar tumor evolutionary trees using simulated and real data.
Area of Science:
- Computational biology
- Cancer research
- Phylogenetics
Background:
- Advances in cancer sequencing necessitate robust methods for analyzing tumor evolutionary histories.
- Existing tumor phylogeny similarity measures lack standardization and struggle with recurrent mutations.
Purpose of the Study:
- To introduce MP3, a novel similarity measure for tumor phylogenies.
- To address limitations of current methods in handling multiple and recurrent mutations.
Main Methods:
- Development of the MP3 similarity measure.
- Comparative analysis of MP3 against existing measures using simulated and real tumor phylogenetic data.
Main Results:
- MP3 is the first similarity measure capable of managing simultaneous and recurrent mutations in tumor phylogenies.
- MP3 demonstrates superior performance in correctly classifying similar and dissimilar trees compared to existing methods.
- Validation on both simulated and real cancer data.
Conclusions:
- MP3 offers a significant advancement in comparing tumor phylogenies, particularly in complex evolutionary scenarios.
- The proposed measure provides a reliable tool for cancer research, aiding in the evaluation and clustering of tumor evolutionary histories.
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