Gastric cancer (GC) is a leading contributor to global cancer incidence and mortality.
Pioneering genomic studies, focusing largely on primary GCs, revealed driver alterations in …

Structural variations (SVs) affect more of the cancer genome than any other type of somatic
genetic alteration but difficulties in detecting and interpreting them have limited our …

Determining how somatic copy number alterations (SCNAs) promote cancer is an important
goal. We characterized SCNA patterns in 4,934 cancers from The Cancer Genome Atlas …

Structural variants (SVs), including small insertion and deletion variants (indels), are
challenging to detect through standard alignment-based variant calling methods. Sequence …

The role of enhancers, a key class of non-coding regulatory DNA elements, in cancer
development has increasingly been appreciated. Here, we present the detection and …

We describe a computational method that infers tumor purity and malignant cell ploidy
directly from analysis of somatic DNA alterations. The method, named ABSOLUTE, can …

Mitotic chromosomes are among the most recognizable structures in the cell, yet for over a
century their internal organization remains largely unsolved. We applied chromosome …

Despite considerable progress in genome-and proteome-based high-throughput screening
methods and in rational drug design, the increase in approved drugs in the past decade did …

Topologically associating domains (TADs) are fundamental units of three-dimensional (3D)
nuclear organization. The regions bordering TADs—TAD boundaries—contribute to the …

Although at the genetic level cancer is caused by diverse mutations, epigenetic
modifications are characteristic of all cancers, from apparently normal precursor tissue to …