Cancer progression involves the gradual loss of a differentiated phenotype and acquisition
of progenitor and stem-cell-like features. Here, we provide novel stemness indices for …

We performed an extensive immunogenomic analysis of more than 10,000 tumors comprising
33 diverse cancer types by utilizing data compiled by TCGA. Across cancer types, we …

Motivation: Our goal is to construct a model for genetic regulatory networks such that the
model class: (i) incorporates rule-based dependencies between genes; (ii) allows the …

To the Editor—In medicine, digital twin models use real-time data to adjust treatment,
monitor response and track lifestyle modifications. Similarly, cancer patient digital twins (CPDTs) …

DNA damage repair (DDR) pathways modulate cancer risk, progression, and therapeutic
response. We systematically analyzed somatic alterations to provide a comprehensive view of …

An automated image analysis method for quantification of in vitro angiogenesis is presented.
The method is designed for in vitro angiogenesis assays that are based on co-culturing …

The Cancer Genome Atlas (TCGA) Research Network has profiled and analyzed large
numbers of human tumors to discover molecular aberrations at the DNA, RNA, protein and …

We describe the landscape of somatic genomic alterations based on multidimensional and
comprehensive characterization of more than 500 glioblastoma tumors (GBMs). We identify …

For a decade, The Cancer Genome Atlas (TCGA) program collected clinicopathologic
annotation data along with multi-platform molecular profiles of more than 11,000 human tumors …

Genetic alterations in signaling pathways that control cell-cycle progression, apoptosis, and
cell growth are common hallmarks of cancer, but the extent, mechanisms, and co-…