Reconstructing phylogenies of metastatic cancers

Reconstructing metastatic seeding patterns of human cancers

Reconstructing the evolutionary history of metastases is critical for understanding their basic biological principles and has profound clinical implications. Genome-wide sequencing data has enabled modern phylogenomic methods to accurately dissect subclones and their phylogenies from noisy and impure bulk tumour samples at unprecedented depth. However, existing methods are not designed to infer...

Applying Neural Networks in Raman Spectral Analysis to Discriminate the Origin of Metastatic Cancers to Lymphatic Nodes

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Reconstructing and Using Phylogenies

Analyzing the Accuracy of the Fitch Method for Reconstructing Ancestral States on Ultrametric Phylogenies

Recurrence formulas are presented for studying the accuracy of the Fitch method for reconstructing the ancestral states in a given phylogenetic tree. As their applications, we analyze the convergence of the accuracy of reconstructing the root state in a complete binary tree of 2 as n goes to infinity and also give a lower bound on the accuracy of reconstructing the root state in an ultrametric ...

Shortest triplet clustering: reconstructing large phylogenies using representative sets

BACKGROUND Understanding the evolutionary relationships among species based on their genetic information is one of the primary objectives in phylogenetic analysis. Reconstructing phylogenies for large data sets is still a challenging task in Bioinformatics. RESULTS We propose a new distance-based clustering method, the shortest triplet clustering algorithm (STC), to reconstruct phylogenies. T...