CellGO: a novel deep learning-based framework and webserver for cell-type-specific gene function interpretation.

ABSTRACT: Interpreting the function of genes and gene sets identified from omics experiments remains a challenge, as current pathway analysis tools often fail to consider the critical biological context, such as tissue or cell-type specificity. To address this limitation, we introduced CellGO. CellGO tackles this challenge by leveraging the visible neural network (VNN) and single-cell gene expressions to mimic cell-type-specific signaling propagation along the Gene Ontology tree within a cell. This design enables a novel scoring system to calculate the cell-type-specific gene-pathway paired active scores, based on which, CellGO is able to identify cell-type-specific active pathways associated with single genes. In addition, by aggregating the activities of single genes, CellGO extends its capability

SUBMITTER: Li P 

PROVIDER: S-EPMC10790717 | biostudies-literature | 2023 Nov

REPOSITORIES: biostudies-literature