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Series GSE67685 Query DataSets for GSE67685
Status Public on Apr 09, 2015
Title Spatially resolved, highly multiplexed RNA profiling in single cells
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary 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 – 1000 unique RNA species in hundreds of individual cells. Correlation analysis of the ~10^4 – 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.
 
Overall design A single sample is analyzed
 
Contributor(s) Chen KH, Boettiger AN, Moffitt JR, Wang S, Zhuang X
Citation(s) 25858977
Submission date Apr 08, 2015
Last update date May 15, 2019
Contact name Xiaowei Zhuang
E-mail(s) zhuang@chemistry.harvard.edu
Phone 617-384-9818
Organization name Harvard University
Department Chemistry and Chemical Biology
Lab Zhuang
Street address 12 Oxford St
City Cambridge
State/province MA
ZIP/Postal code 02138
Country USA
 
Platforms (1)
GPL15520 Illumina MiSeq (Homo sapiens)
Samples (1)
GSM1654284 RNA-seq from IMR90
Relations
BioProject PRJNA280631
SRA SRP056989

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE67685_RAW.tar 6.1 Mb (http)(custom) TAR (of FPKM_TRACKING)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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