PrismEXP: gene annotation prediction from stratified gene-gene co-expression matrices.

ABSTRACT:

Background

Gene-gene co-expression correlations measured by mRNA-sequencing (RNA-seq) can be used to predict gene annotations based on the co-variance structure within these data. In our prior work, we showed that uniformly aligned RNA-seq co-expression data from thousands of diverse studies is highly predictive of both gene annotations and protein-protein interactions. However, the performance of the predictions varies depending on whether the gene annotations and interactions are cell type and tissue specific or agnostic. Tissue and cell type-specific gene-gene co-expression data can be useful for making more accurate predictions because many genes perform their functions in unique ways in different cellular contexts. However, identifying the optimal tissues and cell types to par

SUBMITTER: Lachmann A 

PROVIDER: S-EPMC9979837 | biostudies-literature | 2023

REPOSITORIES: biostudies-literature