Cell type matching across species using protein embeddings and transfer learning.

ABSTRACT:

Motivation

Knowing the relation between cell types is crucial for translating experimental results from mice to humans. Establishing cell type matches, however, is hindered by the biological differences between the species. A substantial amount of evolutionary information between genes that could be used to align the species is discarded by most of the current methods since they only use one-to-one orthologous genes. Some methods try to retain the information by explicitly including the relation between genes, however, not without caveats.

Results

In this work, we present a model to transfer and align cell types in cross-species analysis (TACTiCS). First, TACTiCS uses a natural language processing model to match genes using their protein sequences. Next, TACTiCS employs a ne

SUBMITTER: Biharie K 

PROVIDER: S-EPMC10311290 | biostudies-literature | 2023 Jun

REPOSITORIES: biostudies-literature