Profiling the transcriptome with RNA SPOTs.

Chee-Huat Linus EngSheel ShahJulian ThomassieLong Cai

Published in: Nature methods (2017)

Single-molecule FISH (smFISH) has been the gold standard for quantifying individual transcript abundances. Here, we scale up multiplexed smFISH to the transcriptome level and profile 10,212 different mRNAs from mouse fibroblast and embryonic stem cells. This method, called RNA sequential probing of targets (SPOTs), provides an accurate, flexible, and low-cost alternative to sequencing for profiling transcriptomes.

Keyphrases

single cell
single molecule
rna seq
low cost
embryonic stem cells
atomic force microscopy
living cells
nucleic acid
gene expression
dna methylation
genome wide
molecular dynamics simulations
solid state
fluorescent probe
high speed