ADAPTS: Automated deconvolution augmentation of profiles for tissue specific cells.

ABSTRACT: Immune cell infiltration of tumors and the tumor microenvironment can be an important component for determining patient outcomes. For example, immune and stromal cell presence inferred by deconvolving patient gene expression data may help identify high risk patients or suggest a course of treatment. One particularly powerful family of deconvolution techniques uses signature matrices of genes that uniquely identify each cell type as determined from single cell type purified gene expression data. Many methods from this family have been recently published, often including new signature matrices appropriate for a single purpose, such as investigating a specific type of tumor. The package ADAPTS helps users make the most of this expanding knowledge base by introducing a framework for cell type

SUBMITTER: Danziger SA 

PROVIDER: S-EPMC6863530 | biostudies-literature | 2019

REPOSITORIES: biostudies-literature