Motivation: Development and progression of solid tumors can be attributed to a process of
mutations, which typically includes changes in the number of copies of genes or genomic …

Motivation Tumours evolve as heterogeneous populations of cells, which may be
distinguished by different genomic aberrations. The resulting intra-tumour heterogeneity …

Motivation In recent years, the well-known Infinite Sites Assumption has been a fundamental
feature of computational methods devised for reconstructing tumor phylogenies and inferring …

Motivation Multi-region sequencing of solid tumors can improve our understanding of
intratumor subclonal diversity and the evolutionary history of mutational events. Due to …

Inspired by recent efforts to model cancer evolution with phylogenetic trees, we consider the
problem of finding a consensus tumor evolution tree from a set of conflicting input trees. In …

Understanding the mutational heterogeneity within tumors is a keystone for the development
of efficient cancer therapies. Here, we present SCITE, a stochastic search algorithm to …

Tumor classification is a well-studied problem in the field of bioinformatics. Developments in
the field of DNA chip design have now made it possible to measure the expression levels of …

Background Cancer progression reconstruction is an important development stemming from
the phylogenetics field. In this context, the reconstruction of the phylogeny representing the …

Motivation Cancer is characterized by intra-tumor heterogeneity, the presence of distinct cell
populations with distinct complements of somatic mutations, which include single-nucleotide …

The evolutionary dynamics of cancer, characterized by its profound heterogeneity, demand
sophisticated tools for a holistic understanding. This review delves into tumor phylogenetics …