Deep learning of cross-species single-cell landscapes identifies conserved regulatory programs underlying cell types.
Nat Genet
; 54(11): 1711-1720, 2022 11.
Article
em En
| MEDLINE
| ID: mdl-36229673
ABSTRACT
Despite extensive efforts to generate and analyze reference genomes, genetic models to predict gene regulation and cell fate decisions are lacking for most species. Here, we generated whole-body single-cell transcriptomic landscapes of zebrafish, Drosophila and earthworm. We then integrated cell landscapes from eight representative metazoan species to study gene regulation across evolution. Using these uniformly constructed cross-species landscapes, we developed a deep-learning-based strategy, Nvwa, to predict gene expression and identify regulatory sequences at the single-cell level. We systematically compared cell-type-specific transcription factors to reveal conserved genetic regulation in vertebrates and invertebrates. Our work provides a valuable resource and offers a new strategy for studying regulatory grammar in diverse biological systems.
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Base de dados:
MEDLINE
Assunto principal:
Peixe-Zebra
/
Aprendizado Profundo
Idioma:
En
Ano de publicação:
2022
Tipo de documento:
Article