Deep neural network learning biological condition information refines gene-expression-based cell subtypes.

ABSTRACT: With the recent advent of single-cell level biological understanding, a growing interest is in identifying cell states or subtypes that are homogeneous in terms of gene expression and are also enriched in certain biological conditions, including disease samples versus normal samples (condition-specific cell subtype). Despite the importance of identifying condition-specific cell subtypes, existing methods have the following limitations: since they train models separately between gene expression and the biological condition information, (1) they do not consider potential interactions between them, and (2) the weights from both types of information are not properly controlled. Also, (3) they do not consider non-linear relationships in the gene expression and the biological condition. To addre

SUBMITTER: Fan Z 

PROVIDER: S-EPMC10794113 | biostudies-literature | 2023 Nov

REPOSITORIES: biostudies-literature