Almog Angel

xCell 2.0 introduces a pipeline for generating custom reference objects that can be used for cell type enrichment analysis (Fig. 1A). This pipeline, which enhances the applicability of the method to diverse tissue types and experimental conditions, begins by obtaining a reference gene expression dataset of pure cell types, which can be derived from microarray, bulk RNA-seq, or scRNA-Seq data. Next, it generates cell type gene signatures using a similar approach to the original xCell method.

Abstract Background: Accurate estimation of cell type proportions from bulk gene expression data is essential for understanding the cellular heterogeneity underlying complex tissues and diseases. Here, we introduce xCell 2.0, an advanced version of the xCell algorithm, featuring a training function that permits the utilization of any reference dataset.