Bulk RNA-seq of human knee osteoarthritis synovium
RNA-seq (gene expression) · human · 41 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
- 41 samples: 36 × Knee OA synovium vs 5 × Knee non-OA synoviumGroups 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
- CD34hi subset of synovial fibroblasts contributes to fibrotic phenotype of human knee osteoarthritisJCI insight · 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 GSE283079_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 PRJNA1191832 and SRA study SRP548204. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 41 samples.
How we read this: 2 replicated groups read from 41 sample titles; they account for 41 of them. 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.
- GSM8655560 Knee OA synovium_1 Knee OA synovium
- GSM8655561 Knee OA synovium_2 Knee OA synovium
- GSM8655562 Knee OA synovium_3 Knee OA synovium
- GSM8655563 Knee OA synovium_4 Knee OA synovium
- GSM8655564 Knee OA synovium_5 Knee OA synovium
- GSM8655565 Knee OA synovium_6 Knee OA synovium
- GSM8655566 Knee OA synovium_7 Knee OA synovium
- GSM8655567 Knee OA synovium_8 Knee OA synovium
- GSM8655568 Knee OA synovium_9 Knee OA synovium
- GSM8655569 Knee OA synovium_10 Knee OA synovium
- GSM8655570 Knee OA synovium_11 Knee OA synovium
- GSM8655571 Knee OA synovium_12 Knee OA synovium
- GSM8655572 Knee OA synovium_13 Knee OA synovium
- GSM8655573 Knee OA synovium_14 Knee OA synovium
- GSM8655574 Knee OA synovium_15 Knee OA synovium
- GSM8655575 Knee OA synovium_16 Knee OA synovium
- GSM8655576 Knee OA synovium_17 Knee OA synovium
- GSM8655577 Knee OA synovium_18 Knee OA synovium
- GSM8655578 Knee OA synovium_19 Knee OA synovium
- GSM8655579 Knee OA synovium_20 Knee OA synovium
- GSM8655580 Knee OA synovium_21 Knee OA synovium
- GSM8655581 Knee OA synovium_22 Knee OA synovium
- GSM8655582 Knee OA synovium_23 Knee OA synovium
- GSM8655583 Knee OA synovium_24 Knee OA synovium
- GSM8655584 Knee OA synovium_25 Knee OA synovium
- GSM8655585 Knee OA synovium_26 Knee OA synovium
- GSM8655586 Knee OA synovium_27 Knee OA synovium
- GSM8655587 Knee OA synovium_28 Knee OA synovium
- GSM8655588 Knee OA synovium_29 Knee OA synovium
- GSM8655589 Knee OA synovium_30 Knee OA synovium
- GSM8655590 Knee OA synovium_31 Knee OA synovium
- GSM8655591 Knee OA synovium_32 Knee OA synovium
- GSM8655592 Knee OA synovium_33 Knee OA synovium
- GSM8655593 Knee OA synovium_34 Knee OA synovium
- GSM8655594 Knee OA synovium_35 Knee OA synovium
- GSM8655595 Knee OA synovium_36 Knee OA synovium
- GSM8655596 Knee non-OA synovium_1 Knee non-OA synovium
- GSM8655597 Knee non-OA synovium_2 Knee non-OA synovium
- GSM8655598 Knee non-OA synovium_3 Knee non-OA synovium
- GSM8655599 Knee non-OA synovium_4 Knee non-OA synovium
+ 1 more — browse all 41 samples with per-sample file links →
- GSE253198 Cell and Transcriptomic Diversity of Infrapatellar Fat Pad during Knee Osteoarthritis [snRNA-seq] 21 samples shares osteoarthritis, rna-seq, knee
- GSE327707 Sorted bulk RNA-seq profiling of human peripheral blood mononuclear cell populations across diverse in vitro immune stimuli 150 samples shares rna-seq, bulk
- GSE205154 Bulk RNA-Seq gene expression data for 289 primary and metastatic pancreatic ductal adenocarcinoma (PDAC) tumor samples from FFPE blocks. 289 samples shares rna-seq, bulk
- GSE317207 Transcriptomic profiling of human hepatocellular carcinoma biopsy samples using bulk RNA-seq 33 samples shares rna-seq, bulk
- GSE297742 Bulk RNA-seq of primary tumor biopsy samples from prostate adenocarcinoma patients 234 samples shares rna-seq, bulk
- GSE327166 Bulk RNA-seq profiling of pleural mesothelioma and comparator pleural specimens 89 samples shares rna-seq, bulk
- GSE309941 Immunometabolic Endotypes Define Distinct Clinical Trajectories in Type 2 Diabetes [bulk RNA-seq] 42 samples shares rna-seq, bulk
- GSE339456 Integrated bulk and spatial transcriptomic analysis identifies progression-associated molecular signatures in biopsy-proven hypertensive nephropathy [RNA-seq] 35 samples shares rna-seq, bulk
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.