ScCobra allows contrastive cell embedding learning with domain adaptation for single cell data integration and harmonization.

ABSTRACT: The rapid advancement of single-cell technologies has created an urgent need for effective methods to integrate and harmonize single-cell data. Technical and biological variations across studies complicate data integration, while conventional tools often struggle with reliance on gene expression distribution assumptions and over-correction. Here, we present scCobra, a deep generative neural network designed to overcome these challenges through contrastive learning with domain adaptation. scCobra effectively mitigates batch effects, minimizes over-correction, and ensures biologically meaningful data integration without assuming specific gene expression distributions. It enables online label transfer across datasets with batch effects, allowing continuous integration of new data without retr

SUBMITTER: Zhao B 

PROVIDER: S-EPMC11825689 | biostudies-literature | 2025 Feb

REPOSITORIES: biostudies-literature