Bulk RNA-seq in young (2 months) and aged (22-24 months) mice across 23 cell-types
RNA-seq (gene expression) · mouse · 170 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
- 170 samples: 46 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.
- Paper
- The activity of early-life gene regulatory elements is hijacked in aging through pervasive AP-1-linked chromatin openingCell metabolism · 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 GSE223049_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 PRJNA924765 and SRA study SRP417884. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 170 samples.
How we read this: 46 replicated groups read from 170 sample titles; they account for 170 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.
- GSM8377198 RNA-Seq Adipocytes_O_1 RNA-Seq Adipocytes_O
- GSM8377199 RNA-Seq Adipocytes_O_2 RNA-Seq Adipocytes_O
- GSM8377200 RNA-Seq Adipocytes_O_3 RNA-Seq Adipocytes_O
- GSM8377201 RNA-Seq Adipocytes_O_4 RNA-Seq Adipocytes_O
- GSM8377202 RNA-Seq Adipocytes_O_5 RNA-Seq Adipocytes_O
- GSM8377203 RNA-Seq Adipocytes_Y_1 RNA-Seq Adipocytes_Y
- GSM8377204 RNA-Seq Adipocytes_Y_2 RNA-Seq Adipocytes_Y
- GSM8377205 RNA-Seq Adipocytes_Y_3 RNA-Seq Adipocytes_Y
- GSM8377206 RNA-Seq B-cells_O_1 RNA-Seq B-cells_O
- GSM8377207 RNA-Seq B-cells_O_2 RNA-Seq B-cells_O
- GSM8377208 RNA-Seq B-cells_O_3 RNA-Seq B-cells_O
- GSM8377209 RNA-Seq B-cells_O_4 RNA-Seq B-cells_O
- GSM8377210 RNA-Seq B-cells_Y_1 RNA-Seq B-cells_Y
- GSM8377211 RNA-Seq B-cells_Y_2 RNA-Seq B-cells_Y
- GSM8377212 RNA-Seq B-cells_Y_3 RNA-Seq B-cells_Y
- GSM8377213 RNA-Seq B-cells_Y_4 RNA-Seq B-cells_Y
- GSM8377214 RNA-Seq B-cells_Y_5 RNA-Seq B-cells_Y
- GSM8377215 RNA-Seq Beta-cells_O_1 RNA-Seq Beta-cells_O
- GSM8377216 RNA-Seq Beta-cells_O_2 RNA-Seq Beta-cells_O
- GSM8377217 RNA-Seq Beta-cells_O_3 RNA-Seq Beta-cells_O
- GSM8377218 RNA-Seq Beta-cells_O_4 RNA-Seq Beta-cells_O
- GSM8377219 RNA-Seq Beta-cells_Y_1 RNA-Seq Beta-cells_Y
- GSM8377220 RNA-Seq Beta-cells_Y_3 RNA-Seq Beta-cells_Y
- GSM8377221 RNA-Seq Beta-cells_Y_4 RNA-Seq Beta-cells_Y
- GSM8377222 RNA-Seq Beta-cells_Y_5 RNA-Seq Beta-cells_Y
- GSM8377223 RNA-Seq Brain_endothelial_O_1 RNA-Seq Brain_endotheli…
- GSM8377224 RNA-Seq Brain_endothelial_O_2 RNA-Seq Brain_endotheli…
- GSM8377225 RNA-Seq Brain_endothelial_O_3 RNA-Seq Brain_endotheli…
- GSM8377226 RNA-Seq Brain_endothelial_O_4 RNA-Seq Brain_endotheli…
- GSM8377227 RNA-Seq Brain_endothelial_Y_1 RNA-Seq Brain_endotheli…
- GSM8377228 RNA-Seq Brain_endothelial_Y_3 RNA-Seq Brain_endotheli…
- GSM8377229 RNA-Seq Brain_endothelial_Y_4 RNA-Seq Brain_endotheli…
- GSM8377230 RNA-Seq CD4_Memory_O_1 RNA-Seq CD4_Memory_O
- GSM8377231 RNA-Seq CD4_Memory_O_2 RNA-Seq CD4_Memory_O
- GSM8377232 RNA-Seq CD4_Memory_O_3 RNA-Seq CD4_Memory_O
- GSM8377233 RNA-Seq CD4_Memory_O_4 RNA-Seq CD4_Memory_O
- GSM8377234 RNA-Seq CD4_Memory_O_5 RNA-Seq CD4_Memory_O
- GSM8377235 RNA-Seq CD4_Memory_Y_1 RNA-Seq CD4_Memory_Y
- GSM8377236 RNA-Seq CD4_Memory_Y_2 RNA-Seq CD4_Memory_Y
- GSM8377237 RNA-Seq CD4_Memory_Y_3 RNA-Seq CD4_Memory_Y
+ 130 more — browse all 170 samples with per-sample file links →
- GSE319614 Bulk RNA-seq transcriptome profiling of hippocampus across 17 autism spectrum disorder mouse models 269 samples shares rna-seq, across, bulk
- GSE264105 Plate-based scRNA-seq of plasma-positive microglia and plasma-negative microglia in young mice 1111 samples shares rna-seq, young
- GSE326452 Bulk RNA-seq of mouse brain following closed head injury: role of IL-1R1 signaling 200 samples shares rna-seq, bulk
- GSE228960 Bulk RNA-Seq from kidneys of uninephrectomized db/db mice as a model of severe diabetic kidney disease 28 samples shares rna-seq, bulk
- GSE271662 RNA-seq of Mouse Spinal Cord after Lateral Compression Spinal Cord Injury followed by Delayed Atorvastatin or Vehicle Treatment [Bulk RNA-seq of mice spinal cords] 16 samples shares rna-seq, bulk
- GSE277487 Single-nucleus RNA-seq of mouse cortex following CCI-induced traumatic brain injury across multiple time points 12 samples shares rna-seq, across
- GSE292377 Step-wise signal integration governs adaptive programming of lymphocytes [bulkRNA-seq and ATAC-seq] 41 samples shares rna-seq, bulk
- GSE327645 BACH1 acts as a pioneer repressor to enable macrophage plasticity and adaptation across tissues and inflammatory contexts [RNA-seq/ATAC-seq] 28 samples shares rna-seq, across
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.