RNA sequencing analysis of mouse kidney fibroblasts isolated from control kidneys or UUO surgery operated kidneys
RNA-seq (gene expression) · mouse · 11 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
- Mus musculus (mouse)
- Samples
- 11 samples: 4 × Day3 vs 4 × Day7 vs 3 × ControlGroups 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
- Single cell G-protein coupled receptor profiling of activated kidney fibroblasts expressing transcription factor 21British journal of pharmacology · 2023
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 GSE198829_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 PRJNA817103 and SRA study SRP364629. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 11 samples.
How we read this: 3 replicated groups read from 11 sample titles; they account for 11 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.
- GSM5957522 Control-1 Control
- GSM5957523 Control-2 Control
- GSM5957524 Control-3 Control
- GSM5957525 Day3-1 Day3
- GSM5957526 Day3-2 Day3
- GSM5957527 Day3-3 Day3
- GSM5957528 Day3-4 Day3
- GSM5957529 Day7-1 Day7
- GSM5957530 Day7-2 Day7
- GSM5957531 Day7-3 Day7
- GSM5957532 Day7-4 Day7
- GSE299417 RNA sequencing of kidneys of sham-operated mice and mice with unilateral ureteral obstruction (UUO) treated with istradefylline or vehicle 24 samples shares uuo, operated, kidneys, kidney
- GSE198962 RNA sequencing of normal and unilateral ureteral obstruction (UUO) operated mouse kidneys 10 samples shares uuo, operated, kidneys, kidney
- GSE306281 RNA-seq of kidney transcriptome following UUO injury 75 samples shares uuo, kidney
- GSE274992 Splenic fibroblasts control marginal zone B-cell movement and function via two distinct Notch2-dependent regulatory programs 119 samples shares fibroblasts, control
- GSE279927 RNA next-generation sequencing of cardiac fibroblasts isolated from young and old mice 7 days post-MI 25 samples shares fibroblasts, isolated
- GSE229916 Pericytes and perivascular fibroblasts contribute to central nervous system fibrosis in a region dependent manner 832 samples shares fibroblasts
- GSE309637 Effects of TCDD on gene expression in hepatocytes isolated from WT and PkmΔDRE mice. 144 samples shares isolated
- GSE273413 Adipose stem cells are sexually dimorphic cells with dual roles as preadipocytes and resident fibroblasts [FACS_pgWAT_iWAT_ASC] 143 samples shares fibroblasts
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.