Highly specific multiplexed RNA imaging in tissues with split-FISH.

Jolene Jie Lin GohNigel ChouWan Yi SeowNorbert HaChung Pui Paul ChengYun-Ching ChangZiqing Winston ZhaoKok Hao Chen

Published in: Nature methods (2020)

We present split-FISH, a multiplexed fluorescence in situ hybridization method that leverages a split-probe design to achieve enhanced specificity. Split-FISH reduces off-target background fluorescence, decreases false positives and enables accurate RNA profiling in uncleared tissues. We demonstrate the efficacy of split-FISH on various mouse tissues by quantifying the distribution and abundance of 317 genes in single cells and reveal diverse localization patterns for spatial regulation of the transcriptome in complex tissues.

Keyphrases

single cell
gene expression
genome wide
high resolution
single molecule
induced apoptosis
cell cycle arrest
energy transfer
dna methylation
cell death
quantum dots
living cells
endoplasmic reticulum stress
signaling pathway
mass spectrometry
microbial community
transcription factor
fluorescence imaging