Cell and Transcriptomic Diversity of Infrapatellar Fat Pad during Knee Osteoarthritis [snRNA-seq]
Single-nucleus RNA-seq · human · 21 samples
- What it is
- Single-nucleus RNA-seqGene activity measured in individual nuclei (used when whole cells are hard to isolate, for example from frozen tissue).
- Organism
- Homo sapiens (human)
- Samples
- 21 samples: 21 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 GSE253198_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: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.
Also filed as BioProject PRJNA1064411 and SRA study SRP483556. 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 21 sample titles: 21 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)
- GSE253200 Cell and Transcriptomic Diversity of Infrapatellar Fat Pad during Knee Osteoarthritis 33 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
- GSE283776 Human stem cell-derived GABAergic interneuron development reveals early emergence of subtype diversity followed by gradual electrochemical maturation [snRNA-seq] 19 samples shares diversity, snrna-seq
- 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
- GSE292453 Single-Cell Transcriptomics of Multi-Site Cell Therapy in Osteoarthritis: Tissue-Specific Traits and Treatment Correlations [Full Trial] 267 samples shares osteoarthritis
- GSE277967 Reconstitution of Human Brain Cell Diversity in Organoids via Four Protocols [time-course bulk RNA-seq] 768 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.