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Series GSE94054 Query DataSets for GSE94054
Status Public on Sep 13, 2017
Title cTag-PAPERCLIP Reveals Alternative Polyadenylation Promotes Cell-Type Specific Protein Diversity and Shifts Araf Isoforms with Microglia Activation
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Alternative polyadenylation (APA) is increasingly recognized to regulate gene expression across different cell-types, but obtaining APA maps from individual cell-types typically requires prior purification, a stressful procedure that can itself alter cellular states. Here, we describe a new platform, cTag-PAPERCLIP, that generates APA profiles from single cell populations in intact tissues; cTag-PAPERCLIP requires no tissue dissociation and preserves transcripts in native states. Applying cTag-PAPERCLIP to profile four major cell-types in the mouse brain revealed common APA preferences between excitatory and inhibitory neurons distinct from astrocytes and microglia, regulated in part by neuron-specific RNA-binding proteins NOVA2 and PTBP2. We further identified a role of APA in switching Araf protein isoforms during microglia activation, impacting production of downstream inflammatory cytokines. Our results demonstrate the broad applicability of cTag-PAPERCLIP and a previously undiscovered role of APA in contributing to protein diversity between different cell-types and cellular states within the brain.
Overall design Samples GSM2467568-GSM2467582: cTag-PAPERCLIP libraries were generated from brain or liver samples of different mouse strains.
Samples GSM2683273-GSM2683281: RNA-seq libraries were generated from isolated mouse brain microglia or dissected mouse embryonic brain cortex.
Contributor(s) Hwang H, Darnell RB
Citation(s) 28910620
Submission date Jan 25, 2017
Last update date Jul 25, 2021
Contact name Hun-Way Hwang
Organization name University of Pittsburgh
Department Department of Pathology
Lab S754 Scaife Hall
Street address 3550 Terrace Street
City Pittsburgh
State/province PA
ZIP/Postal code 15261
Country USA
Platforms (2)
GPL16417 Illumina MiSeq (Mus musculus)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (24)
GSM2467568 cTag-PAPERCLIP for Gfap-Cre; Ctag-PABP mouse cortex, replicate 1
GSM2467569 cTag-PAPERCLIP for Gfap-Cre; Ctag-PABP mouse cortex, replicate 2
GSM2467570 cTag-PAPERCLIP for Gad2-Cre; Ctag-PABP mouse cortex, replicate 1
BioProject PRJNA368676
SRA SRP097745

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Supplementary file Size Download File type/resource
GSE94054_RAW.tar 2.9 Mb (http)(custom) TAR (of TXT)
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Raw data are available in SRA
Processed data provided as supplementary file

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