Danio rerio
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA631596 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Purpose: Construction of 3D zebrafish spatial transcriptomics data for studying the establishment of AP axis. Methods: We performed serial bulk RNA-seq data of zebrafish embryo at three development points. Using the published spatial transcriptomics data as references, we implemented Palette to infer spatial gene expression from bulk RNA-seq data and constructed 3D embryonic spatial transcriptomics. The constructed 3D transcriptomics data was then projected on zebrafish embryo images with 3D coordinates, establishing a spatial gene expression atlas named Danio rerio Asymmetrical Maps (DreAM). Results: DreAM provides a powerful platform for visualizing gene expression patterns on zebrafish morphology and investigating spatial cell-cell interactions. Conclusions: Our work used DreAM to explore the establishment of anteroposterior (AP) axis, and identified multiple morphogen gradients that played essential roles in determining cell AP positions. Finally, we difined a hox score, and comprehensively demonstrated the spatial collinearity of Hox genes at single-cell resolution during development.
2024-04-08 | GSE262578 | GEO
Project description:Single-cell RNA-seq and ATAC-seq of zebrafish retina
| PRJNA633835 | ENA
Project description:Dissecting hematopoietic and renal cell heterogeneity in adult zebrafish at single cell resolution using RNA sequencing [bulk RNA-seq]
| PRJNA393430 | ENA
Project description:Dissecting hematopoietic and renal cell heterogeneity in adult zebrafish at single cell resolution using RNA sequencing [Smart-seq]
| PRJNA393431 | ENA
Project description:Transcripts within Rod Photoreceptors of the Zebrafish Retina
| PRJNA390613 | ENA
Project description:Unravelling Zebrafish Heart Regeneration at Single-Cell Level
| PRJNA629656 | ENA
Project description:Gene Expression Profiles of Intact and Regenerating Zebrafish Retina
| PRJNA92815 | ENA
Project description:Dissecting hematopoietic and renal cell heterogeneity in adult zebrafish at single cell resolution using RNA sequencing [inDrops]
| PRJNA393429 | ENA