Background Cancerous cells' identity is determined via a mixture of multiple factors such as
genomic variations, epigenetics, and the regulatory variations that are involved in …

Single-cell RNA sequencing (scRNA-seq) has revealed important insights into the
heterogeneity of malignant cells. However, sample-specific genomic alterations often …

Multiple cancer types have been shown to exhibit heterogeneity in the transcriptional states
of malignant cells across patients and within the same tumor. The intra-tumor transcriptional …

Single-cell RNA-sequencing is an invaluable research tool that allows for the investigation
of gene expression in heterogeneous cancer cell populations in ways that bulk RNA-seq …

Human tumors are highly heterogeneous in their cell composition; specifically, they exhibit
heterogeneity in transcriptional states of malignant cells, as has been recently discovered …

The identity of cancer cells is defined by the interplay between genetic, epigenetic
transcriptional and post-transcriptional variation. A lot of this variation is present in RNA-seq …

Intra-tumor heterogeneity (ITH) is one of the major confounding factors that result in cancer
relapse, and deciphering ITH is essential for personalized therapy. Single-cell DNA …

Single-cell RNA-sequencing (scRNA-seq) is a powerful technology to uncover cellular
heterogeneity in tumor ecosystems. Due to differences in underlying gene load, direct …

Background De novo inference of clinically relevant gene function relationships from tumor
RNA-seq remains a challenging task. Current methods typically either partition patient …

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 …