GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE230808 Query DataSets for GSE230808
Status Public on Apr 05, 2024
Title Shared and compartment-specific processes in nucleus pulposus and annulus fibrosus during intervertebral disc degeneration
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Elucidating how cell populations promote onset and progression of intervertebral disc degeneration (IDD) has the potential to enable more precise therapeutic targeting of cells and mechanisms. Single cell RNA-sequencing (scRNA-seq) was performed on surgically separated annulus fibrosus (AF) (19,978; 26,983 cells) and nucleus pulposus (NP) (20,884; 24,489 cells) from healthy and diseased human intervertebral discs (IVD). In both tissue types, we observed depletion of cell subsets involved in maintenance of healthy IVD, specifically the immature cell subsets – fibroblast progenitors and stem cells – indicative of an impairment of normal tissue self-renewal. We also identified tissue-specific changes. In NP, several fibrotic populations were increased in degenerated IVD, indicating tissue-remodeling. In degenerated AF, we identified a novel disease-associated subset, which is a stem cell-derived abnormally differentiated chondrocytic population and expresses disease-promoting genes. It was associated with pathogenic biological processes and the main gene regulatory networks includedthrombospondinsignaling and FOXO1 transcription factor. Our data reveal new insights of both shared and tissue-specific changes in specific cell populations in AF and NP during IVD degeneration. These identified mechanisms and molecules are novel and more precise targets for IDD prevention and treatment.
Overall design Single cell level analysis of annulus fibrosus and nucleus pulposus tissues from human diseased (n=10, n=8) intervertebral discs.
Contributor(s) Swahn H, Mertens J, Olmer M, Myers K, Mondala TS, Natarajan P, Head SR, Alvarez-Garcia O, Lotz MK
Citation(s) 38403470
Submission date Apr 27, 2023
Last update date Apr 06, 2024
Contact name Padma Natarajan
Organization name The Scripps Research Institute
Department CCBB
Street address 10550 N.Torrey Pines Road
City La Jolla
State/province CA
ZIP/Postal code 92037
Country USA
Platforms (1)
GPL30173 NextSeq 2000 (Homo sapiens)
Samples (18)
GSM7235331 diseased annulus fibrosus (Thompson grade III-IV) single cell RNAseq, donor5
GSM7235332 diseased annulus fibrosus (Thompson grade III-IV) single cell RNAseq, donor6
GSM7235333 diseased annulus fibrosus (Thompson grade II-III) single cell RNAseq, donor1
This SubSeries is part of SuperSeries:
GSE230809 Intervertebral disc degeneration
BioProject PRJNA962589

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
GSE230808_RAW.tar 703.2 Mb (http)(custom) TAR (of MTX, TSV)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap