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Transcriptome In Vivo Analysis (TIVA) of spatially defined single cells in intact live mouse and human brain tissue

Identifiers: SRA: SRP033139
BioProject: PRJNA229175
GEO: GSE52525
Study Type: 
Transcriptome Analysis
Abstract: Transcriptome profiling is an indispensable tool in advancing the understanding of single cell biology, but depends upon methods capable of isolating mRNA at the spatial resolution of a single cell. Current capture methods lack sufficient spatial resolution to isolate mRNA from individual in vivo resident cells without damaging adjacent tissue. Because of this limitation, it has been difficult to assess the influence of the microenvironment on the transcriptome of individual neurons. Here, we engineered a Transcriptome In Vivo Analysis (TIVA)-tag, which upon photoactivation enables mRNA capture from single cells in live tissue. Using the TIVA-tag in combination with RNA-seq to analyze transcriptome variance among single dispersed cells and in vivo resident mouse and human neurons, we show that the tissue microenvironment shapes the transcriptomic landscape of individual cells. The TIVA methodology provides the first noninvasive approach for capturing mRNA from single cells in their natural microenvironment. Overall design: Samples represent cortex and hippocampus neuron cells collected by pipette and TIVA captured.
Center Project: GSE52525
External Link: /pubmed:24412976

Related SRA data

28 ( 28 samples )
28 (280.4Gbp; 173.6Gb)
Additional objects:
File type count
fastq 56
SRA noqual run 1