Time lapse RNA-Seq of UIR kidney in mice
RNA-seq (gene expression) · mouse · 18 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
- 18 samples: 6 conditions, mostly in triplicateGroups 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.
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 GSE165876_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 PRJNA698481 and SRA study SRP304094. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 18 samples.
How we read this: 6 replicated groups read from 18 sample titles; they account for 18 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.
- GSM5051919 Sham_1d biological replicate 1 Sham_1d
- GSM5051920 Sham_1d biological replicate 2 Sham_1d
- GSM5051921 Sham_1d biological replicate 3 Sham_1d
- GSM5051922 Sham_3d biological replicate 1 Sham_3d
- GSM5051923 Sham_3d biological replicate 2 Sham_3d
- GSM5051924 Sham_3d biological replicate 3 Sham_3d
- GSM5051925 Sham_3w biological replicate 1 Sham_3w
- GSM5051926 Sham_3w biological replicate 2 Sham_3w
- GSM5051927 Sham_3w biological replicate 3 Sham_3w
- GSM5051928 UIR_1d biological replicate 1 UIR_1d
- GSM5051929 UIR_1d biological replicate 2 UIR_1d
- GSM5051930 UIR_1d biological replicate 3 UIR_1d
- GSM5051931 UIR_3d biological replicate 1 UIR_3d
- GSM5051932 UIR_3d biological replicate 2 UIR_3d
- GSM5051933 UIR_3d biological replicate 3 UIR_3d
- GSM5051934 UIR_3w biological replicate 1 UIR_3w
- GSM5051935 UIR_3w biological replicate 2 UIR_3w
- GSM5051936 UIR_3w biological replicate 3 UIR_3w
- GSE274081 A distinct cis-regulatory element is required for ILC3s to maintain intestinal tolerance through amplifying RORγt expression [scRNA-seq] 2 samples shares uir, rna-seq
- GSE228960 Bulk RNA-Seq from kidneys of uninephrectomized db/db mice as a model of severe diabetic kidney disease 28 samples shares rna-seq, kidney
- GSE267650 Mouse kidney ischemia-reperfusion injury time course 57 samples shares kidney, time
- GSE264278 TIme-cource single-cell RNA-seq analysis of bleomycin and LPS-induced lung injury and fibrosis 18 samples shares rna-seq, time
- GSE277487 Single-nucleus RNA-seq of mouse cortex following CCI-induced traumatic brain injury across multiple time points 12 samples shares rna-seq, time
- GSE274125 Timestamp tracing delineates thymic regulatory T cell ontogeny in native conditions [scRNA-seq] 20 samples shares rna-seq, time
- GSE280514 Spatially-restricted and ontogenically-distinct hepatic macrophages are required for tissue repair. 48 samples shares uir
- GSE273494 Pattern separation memory requires Cerebellin 4-Neogenin 1 signaling at dentate gyrus synapses 36 samples shares uir
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.