Type I and II interferons (IFNs) stimulate pro-inflammatory programs that are critical for immune
activation, but also induce immune-suppressive feedback circuits that impede control of …

Multi-omics datasets represent distinct aspects of the central dogma of molecular biology.
Such high-dimensional molecular profiles pose challenges to data interpretation and …

Sonic hedgehog medulloblastoma encompasses a clinically and molecularly diverse group
of cancers of the developing central nervous system. Here, we use unbiased sequencing of …

Type I interferons (IFN-Is) are central regulators of anti-tumor immunity and responses to
immunotherapy, but they also drive the feedback inhibition underlying therapeutic resistance. In …

Inhibiting PD-1:PD-L1 signaling has transformed therapeutic immune restoration. CD4 + T
cells sustain immunity in chronic infections and cancer, yet little is known about how PD-1 …

A comprehensive catalog of cancer driver mutations is essential for understanding tumorigenesis
and developing therapies. Exome-sequencing studies have mapped many protein-…

Network biologists attempt to extract meaningful relationships among genes or their products
from very noisy data. We argue that what we categorize as noisy data may sometimes …

We report here a simple and global strategy to map out gene functions and target pathways
of drugs, toxins, or other small molecules based on "homomer dynamics" protein-fragment …

CD4 T cells are central effectors of anti-cancer immunity and immunotherapy, yet the regulation
of CD4 tumor-specific T (T TS ) cells is unclear. We demonstrate that CD4 T TS cells are …

Background Cancer genomes are shaped by mutational processes with complex spatial
variation at multiple scales. Entire classes of regulatory elements are affected by local variations …