Next-generation sequencing has made major strides in the past decade. Studies based on
large sequencing data sets are growing in number, and public archives for raw sequencing …

Immune responses to cancer are highly variable, with mismatch repair-deficient (MMRd)
tumors exhibiting more anti-tumor immunity than mismatch repair-proficient (MMRp) tumors …

PARP inhibitors (PARPi) have drastically changed the treatment landscape of advanced
ovarian tumors with BRCA mutations. However, the impact of this class of inhibitors in …

Renal cell carcinoma (RCC) is not a single disease, but several histologically defined
cancers with different genetic drivers, clinical courses, and therapeutic responses. The …

Tissues are complex milieus consisting of numerous cell types. Several recent methods
have attempted to enumerate cell subsets from transcriptomes. However, the available …

Histologically normal tissue adjacent to the tumor (NAT) is commonly used as a control in
cancer studies. However, little is known about the transcriptomic profile of NAT, how it is …

Determining how cells vary with their local signaling environment and organize into distinct
cellular communities is critical for understanding processes as diverse as development …

The advantage of using the recount2 version of GTEx data is that all data are identically
processed, therefore enabling integrated analyses of multiple datasets. To illustrate how …

OncoLnc is a tool for interactively exploring survival correlations, and for downloading
clinical data coupled to expression data for mRNAs, miRNAs, or long noncoding RNAs …

Resistance to ionizing radiation, a first-line therapy for many cancers, is a major clinical
challenge. Personalized prediction of tumor radiosensitivity is not currently implemented …