Cross-Platform DNA Encoding for Single-Cell Imaging of Gene Expression.
Integration of imaging data across different molecular target types can provide in-depth insight into cell physiology and pathology, but remains challenging owing to poor compatibility between target-type-specific labeling methods. We show that cross-platform imaging analysis can be readily achieved through DNA encoding of molecular targets, which translates the molecular identity of various target types into a uniform in situ array of ssDNA tags for subsequent labeling with complementary imaging probes. The concept was demonstrated through multiplexed imaging of mRNAs and their corresponding proteins with multicolor quantum dots. The results reveal heterogeneity of cell transfection with siRNA and outline disparity in RNA interference (RNAi) kinetics at the level of both the mRNA and the encoded protein.
Department of Bioengineering, University of Washington, Seattle, WA, 98195, USA.
Pavel
P
Zrazhevskiy
Department of Pathology, University of Washington, Seattle, WA, 98195, USA.
Shreeram
S
Akilesh
Department of Bioengineering, University of Washington, Seattle, WA, 98195, USA.
Wanyi
W
Tai
Department of Genome Sciences, University of Washington, Seattle, WA, 98195, USA.
Konstantin
K
Queitsch
Department of Pathology, University of Washington, Seattle, WA, 98195, USA.
Lawrence D
LD
True
Department of Laboratory Medicine, University of Washington, Seattle, WA, 98195, USA.
Jonathan
J
Fromm
Department of Laboratory Medicine, University of Washington, Seattle, WA, 98195, USA.
David
D
Wu
Department of Medicine, University of Washington, Seattle, WA, 98195, USA.|Fred Hutchinson Cancer Research Center, Seattle, WA, 98109, USA.
Peter
P
Nelson
Department of Genome Sciences, University of Washington, Seattle, WA, 98195, USA.|Department of Medicine, University of Washington, Seattle, WA, 98195, USA.
John A
JA
Stamatoyannopoulos
Department of Bioengineering, University of Washington, Seattle, WA, 98195, USA. xgao@uw.edu.
Xiaohu
X
Gao
D004247:DNA / Q000235:genetics*; D005456:Fluorescent Dyes / Q000737:chemistry; D015870:Gene Expression / Q000235:genetics*; D006367:HeLa Cells; D006801:Humans; D008856:Microscopy, Fluorescence; D045663:Quantum Dots / Q000737:chemistry; D012333:RNA, Messenger / Q000235:genetics; D059010:Single-Cell Analysis
D005456:Fluorescent Dyes; D012333:RNA, Messenger; D004247:DNA
DNA encoding; gene expression; imaging; quantum dots; single-cell measurements