Two Broad Categories Overlapping With Rheumatoid Arthritis Observed in Synovial Biopsies from Patients With Juvenile Idiopathic Arthritis
RNA-seq (gene expression) · human · 24 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
- 24 samples: 22 × RNAGroups 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
- Two Broad Categories Overlapping With Rheumatoid Arthritis Observed in Synovial Biopsies from Patients With Juvenile Idiopathic ArthritisArthritis & rheumatology (Hoboken, N.J.) · 2024
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 GSE253553_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 PRJNA1066267 and SRA study SRP484631. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 22 samples.
How we read this: 1 replicated groups read from 24 sample titles; they account for 22 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.
- GSM8023121 176539
- GSM8023122 205576
- GSM8023123 RNA0000020 RNA
- GSM8023124 RNA0000027 RNA
- GSM8023125 RNA0000496 RNA
- GSM8023126 RNA0000774 RNA
- GSM8023127 RNA0000775 RNA
- GSM8023128 RNA0000776 RNA
- GSM8023129 RNA0000777 RNA
- GSM8023130 RNA0000778 RNA
- GSM8023131 RNA0000789 RNA
- GSM8023132 RNA0000790 RNA
- GSM8023133 RNA0000791 RNA
- GSM8023134 RNA0000792 RNA
- GSM8023135 RNA0000806 RNA
- GSM8023136 RNA0000807 RNA
- GSM8023137 RNA0000808 RNA
- GSM8023138 RNA0000811 RNA
- GSM8023139 RNA0000813 RNA
- GSM8023140 RNA0000814 RNA
- GSM8023141 RNA0000825 RNA
- GSM8023142 RNA0000826 RNA
- GSM8023143 RNA0000947 RNA
- GSM8023144 RNA0000948 RNA
- GSE314080 Transcriptional Profiling of Synovial Macrophages using Minimally Invasive Ultrasound-Guided Synovial Biopsies in Rheumatoid Arthritis [dataset2] 24 samples shares rheumatoid, arthritis, synovial, biopsies
- GSE314078 Transcriptional Profiling of Synovial Macrophages using Minimally Invasive Ultrasound-Guided Synovial Biopsies in Rheumatoid Arthritis [dataset1] 18 samples shares rheumatoid, arthritis, synovial, biopsies
- GSE246421 Loss of synovial tissue macrophage homeostasis precedes Rheumatoid Arthritis clinical onset 26 samples shares rheumatoid, arthritis, synovial
- GSE296117 A single-cell RNA-seq dataset of synovial fluid from rheumatoid arthritis treated with TNF-α/JAK inhibitor 18 samples shares rheumatoid, arthritis, synovial
- GSE278613 A New Role for Huntingtin-Interacting Protein 1-Related (HIP1R) in Rheumatoid Arthritis Synovial Fibroblast Transcriptomic, Biological Processes and Invasiveness 9 samples shares rheumatoid, arthritis, synovial
- GSE246416 Loss of synovial tissue macrophage homeostasis precedes Rheumatoid Arthritis clinical onset. 5 samples shares rheumatoid, arthritis, synovial
- GSE118829 Gene expressions of T cells in each developmental stages in healthy volunteers and patients with rheumatoid arthritis 336 samples shares rheumatoid, arthritis
- GSE274680 Inflammation and lymphocyte activation during longitudinal progression to rheumatoid arthritis in at-risk individuals 243 samples shares rheumatoid, arthritis
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.