Cell types and clonal relations in the mouse brain revealed by single-cell and spatial transcriptomics
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Dataset information
Summary
We report TREX for simultaneous lineage tracking and expression profiling of dissociated cells from the juvenile mouse brain using single cell transcriptomics. We also developed Space-TREX enabling tracking and transcriptome profiling in intact tissue sections via Spatial Transcriptomics.
We report TREX for simultaneous lineage tracking and expression profiling of dissociated cells from the juvenile mouse brain using single cell transcriptomics. We also developed Space-TREX enabling tracking and transcriptome profiling in intact tissue sections via Spatial Transcriptomics.
Overall design
Lentiviral delivery of a transcribed barcode into neuroepithelial progenitor cells using in utero microinjection into the mouse forebrain at embryonic day 9.5 followed by RNA-seq analysis of barcoded cells at postnatal day 11-14.
Lentiviral delivery of a transcribed barcode into neuroepithelial progenitor cells using in utero microinjection into the mouse forebrain at embryonic day 9.5 followed by RNA-seq analysis of barcoded cells at postnatal day 11-14.
Technology
10x Visium
10x Visium
Platform
GPL16085, GPL16417, GPL21626, GPL24247
GPL16085, GPL16417, GPL21626, GPL24247
Species
Mus musculus
Tissues
Brain
Brain
Development stage
P11, P14
P11, P14
Submission date: 2020-06-28Update date: 2021-04-08
Contributors
Michael Ratz; Leonie von Berlin; Ludvig Larsson; Marcel Martin; Jakub O Westholm; Gioele La Manno; Joakim Lundeberg; Jonas Frisén
Contact: [email protected]
Accessions
GEO Series Accessions:
GSE153424