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SRX9942786: GSM5036823: SS2.16.225_L06; Macaca mulatta; RNA-Seq
1 ILLUMINA (Illumina HiSeq 2500) run: 247,818 spots, 10.7M bases, 7.7Mb downloads

Submitted by: NCBI (GEO)
Study: Single cell transcriptomics of primate sensory neurons identifies cell types associated with chronic pain [SmartSeq2]
show Abstracthide Abstract
Distinct types of dorsal root ganglion sensory neurons may have unique contributions to chronic pain. Identification of primate sensory neuron types is critical for understanding the cellular origin and heritability of chronic pain. However, molecular insights into the primate sensory neurons are missing. Here we classify non-human primate dorsal root ganglion sensory neurons based on their transcriptome and map human pain heritability to neuronal types. First, we identified cell correlates between two major datasets for mouse sensory neuron types. Machine learning exposes an overall cross-species conservation of somatosensory neurons between primate and mouse, although with differences at individual gene level, highlighting the importance of primate data for clinical translation. We map genomic loci associated with chronic pain in human onto primate sensory neuron types to identify the cellular origin of chronic pain. Genome-wide associations for chronic pain converge on two different neuronal types distributed between pain disorders that display different genetic susceptibilities, suggesting both unique and shared mechanisms between different pain conditions. Overall design: Single cell transcriptomic study of rhesus macaque sensory RDG neurons. This dataset includes 2688 cells using the SmartSeq2 protocol.
Sample: SS2.16.225_L06
SAMN17579340 • SRS8115652 • All experiments • All runs
Organism: Macaca mulatta
Library:
Instrument: Illumina HiSeq 2500
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: SINGLE
Construction protocol: Extracted DRGs were cut once longitudinally (along the nerve) followed by chopping into ~0.5 mm slices. Samples were enzymatically treated for 1 h at 37°C with triturating every 15 min. The resulting cell suspension was then run through 100 µm cell-strainers. 1 ml of 10% Optiprep was loaded under the cell suspension solution using a gel loading tip and centrifugated at 200g for 6 min with a low break. Supernatant was discarded, the cell pellet resuspended and run through a 10 µm strainer. The strainer was rinsed twice and cells were then collected by flushing the filter twice. The cells were kept on ice for 15-20 min, centrifuged for 3 min at 100 g and resuspended in 900 µl of filtered NMDG-SC/B27/12% optiprep and dispensed immediately into a WaferGen9600 Chip. RNA libraries were prepared for sequencing using the Smart-Seq2 protocol (Picelli et al, Nat Protoc. 2014)
Experiment attributes:
GEO Accession: GSM5036823
Links:
Runs: 1 run, 247,818 spots, 10.7M bases, 7.7Mb
Run# of Spots# of BasesSizePublished
SRR13534334247,81810.7M7.7Mb2021-01-28

ID:
13003393

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