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Science. 2015 Apr 24;348(6233):aaa6090. doi: 10.1126/science.aaa6090. Epub 2015 Apr 9.

RNA imaging. Spatially resolved, highly multiplexed RNA profiling in single cells.

Author information

  • 1Howard Hughes Medical Institute, Department of Chemistry and Chemical Biology, Harvard University, Cambridge, MA 02138, USA.
  • 2Howard Hughes Medical Institute, Department of Chemistry and Chemical Biology, Harvard University, Cambridge, MA 02138, USA. Department of Physics, Harvard University, Cambridge, MA 02138, USA. zhuang@chemistry.harvard.edu.

Abstract

Knowledge of the expression profile and spatial landscape of the transcriptome in individual cells is essential for understanding the rich repertoire of cellular behaviors. Here, we report multiplexed error-robust fluorescence in situ hybridization (MERFISH), a single-molecule imaging approach that allows the copy numbers and spatial localizations of thousands of RNA species to be determined in single cells. Using error-robust encoding schemes to combat single-molecule labeling and detection errors, we demonstrated the imaging of 100 to 1000 distinct RNA species in hundreds of individual cells. Correlation analysis of the ~10(4) to 10(6) pairs of genes allowed us to constrain gene regulatory networks, predict novel functions for many unannotated genes, and identify distinct spatial distribution patterns of RNAs that correlate with properties of the encoded proteins.

Copyright © 2015, American Association for the Advancement of Science.

PMID:
25858977
[PubMed - indexed for MEDLINE]
PMCID:
PMC4662681
Free PMC Article
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