Cell and Transcriptomic Diversity of Infrapatellar Fat Pad during Knee Osteoarthritis
RNA-seq (gene expression) · human · 33 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Homo sapiens (human)
- Samples
- 33 samples: 33 samples, each with a distinct title — no replicated groupsGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
- Paper
- Cell and transcriptomic diversity of infrapatellar fat pad during knee osteoarthritisAnnals of the rheumatic diseases · 2025
Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.
Processed table
The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE253200_RAW.tar (it can run to tens of gigabytes).
Raw sequencing reads
The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.
What the files usually look like: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA1064409 and SRA study SRP483554. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 33 sample titles: 33 distinct titles with little repetition. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.
- GSM8016251 KneeOA_NormalBMI1 (snRNA-seq)
- GSM8016252 KneeOA_NormalBMI2 (snRNA-seq)
- GSM8016253 KneeOA_NormalBMI3 (snRNA-seq)
- GSM8016254 KneeOA_NormalBMI4 (snRNA-seq)
- GSM8016255 KneeOA_NormalBMI5 (snRNA-seq)
- GSM8016256 KneeOA_NormalBMI6 (snRNA-seq)
- GSM8016257 KneeOA_NormalBMI7 (snRNA-seq)
- GSM8016258 KneeOA_ObeseBMI8 (snRNA-seq)
- GSM8016259 KneeOA_ObeseBMI9 (snRNA-seq)
- GSM8016260 KneeOA_ObeseBMI10 (snRNA-seq)
- GSM8016261 KneeOA_ObeseBMI11 (snRNA-seq)
- GSM8016262 KneeOA_ObeseBMI12 (snRNA-seq)
- GSM8016263 KneeOA_ObeseBMI13 (snRNA-seq)
- GSM8016264 KneeOA_ObeseBMI14 (snRNA-seq)
- GSM8016265 KneeOA_ObeseBMI15 (snRNA-seq)
- GSM8016266 HealthyDonor16 (snRNA-seq)
- GSM8016267 HealthyDonor17 (snRNA-seq)
- GSM8016268 HealthyDonor18 (snRNA-seq)
- GSM8016269 HealthyDonor19 (snRNA-seq)
- GSM8016270 HealthyDonor20 (snRNA-seq)
- GSM8016271 HealthyDonor21 (snRNA-seq)
- GSM8016272 KneeOA_NormalBMI1 (ST)
- GSM8016273 KneeOA_NormalBMI2 (ST)
- GSM8016274 KneeOA_NormalBMI3 (ST)
- GSM8016275 KneeOA_NormalBMI4 (ST)
- GSM8016276 KneeOA_NormalBMI5 (ST)
- GSM8016277 KneeOA_NormalBMI7 (ST)
- GSM8016278 KneeOA_ObeseBMI8 (ST)
- GSM8016279 KneeOA_ObeseBMI9 (ST)
- GSM8016280 KneeOA_ObeseBMI10 (ST)
- GSM8016281 KneeOA_ObeseBMI12 (ST)
- GSM8016282 KneeOA_ObeseBMI13 (ST)
- GSM8016283 KneeOA_ObeseBMI14 (ST)
- GSE253198 Cell and Transcriptomic Diversity of Infrapatellar Fat Pad during Knee Osteoarthritis [snRNA-seq] 21 samples shares osteoarthritis, infrapatellar, diversity, knee
- GSE274018 Single-cell Transcriptome and Crosstalk Analysis Reveals Immune Alterations and Key Pathways in the Bone Marrow of Knee Osteoarthritis Patients 77 samples shares osteoarthritis, knee
- GSE279915 Complexity of synovial fluid-derived monocyte–macrophage lineage cells in knee osteoarthritis 12 samples shares osteoarthritis, knee
- GSE248453 Gene expression profile at single cell level of synovial cells from patients with late-stage knee osteoarthritis 8 samples shares osteoarthritis, knee
- GSE283079 Bulk RNA-seq of human knee osteoarthritis synovium 41 samples shares osteoarthritis, knee
- GSE231848 Simulated microgravity recapitulates early molecular events and sex differences of knee osteoarthritis 24 samples shares osteoarthritis, knee
- GSE294277 Integrative single cell RNA-sequencing and spatial transcriptomics uncovers distinct macrophage-fibroblast cross-talk in human hip synovium between patients with femoroacetabular impingement and osteoarthritis 22 samples shares osteoarthritis
- GSE289829 Differentiation-induced reduction in functional diversity restricts the ability of cytomegalovirus-specific CD8 T cells to eliminate virus-infected cells 31 samples shares diversity
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.