Single-cell RNA sequencing (scRNA-seq) identifies cell subpopulations within tissue but
does not capture their spatial distribution nor reveal local networks of intercellular …

A substantial proportion of disease risk for common complex disorders is attributable to
environmental exposures and pollutants. An appreciation of how environmental pollutants …

Many computational methods have been developed to infer cell type proportions from bulk
transcriptomics data. However, an evaluation of the impact of data transformation, pre …

Acute myeloid leukemia (AML) is a cancer of myeloid-lineage cells with limited therapeutic
options. We previously combined ex vivo drug sensitivity with genomic, transcriptomic, and …

INTRODUCTION Many complex human phenotypes, including diseases, exhibit sex-
differentiated characteristics. These sex differences have been variously attributed to …

Motivation The composition and density of immune cells in the tumor microenvironment
(TME) profoundly influence tumor progression and success of anti-cancer therapies. Flow …

Abstract Knowledge of cell type composition in disease relevant tissues is an important step
towards the identification of cellular targets of disease. We present MuSiC, a method that …

Intratumor heterogeneity is a common characteristic across diverse cancer types and
presents challenges to current standards of treatment. Advancements in high-throughput …

Background Deconvolution analyses have been widely used to track compositional
alterations of cell types in gene expression data. Although a large number of novel methods …

Recent advances in single-cell RNA sequencing (scRNA-seq) enable characterization of
transcriptomic profiles with single-cell resolution and circumvent averaging artifacts …