Comprehensive transcriptome analysis reveals altered mRNA splicing and post-transcriptional changes in the aged mouse brain
RNA-seq (gene expression) · mouse · 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
- Mus musculus (mouse)
- Samples
- 24 samples: 18 distinct titles, 2 of them repeatedGroups 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
- Comprehensive transcriptome analysis reveals altered mRNA splicing and post-transcriptional changes in the aged mouse brainNucleic acids research · 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 GSE233837_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 PRJNA978067 and SRA study SRP476162. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 24 sample titles: 18 distinct titles with little repetition. 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.
- GSM7437641 Whole brain, 6m, rep 1 [Illumina]
- GSM7437642 Whole brain, 6m, rep 2 [Illumina]
- GSM7437643 Whole brain, 6m, rep 3 [Illumina]
- GSM7437644 Whole brain, 6m, rep 4 [Illumina]
- GSM7437645 Whole brain, 24m, rep 1 [Illumina]
- GSM7437646 Whole brain, 24m, rep 2 [Illumina]
- GSM7437647 Whole brain, 24m, rep 3 [Illumina]
- GSM7437648 Whole brain, 24m, rep 4 [Illumina]
- GSM7437649 Whole brain, 6m, rep 1 [ONT]
- GSM7437650 Whole brain, 6m, rep 2 [ONT]
- GSM7437651 Whole brain, 6m, rep 3 [ONT]
- GSM7437652 Whole brain, 6m, rep 4 [ONT]
- GSM7437653 Whole brain, 24m, rep 1 [ONT]
- GSM7437654 Whole brain, 24m, rep 2 [ONT]
- GSM7437655 Whole brain, 24m, rep 3 [ONT]
- GSM7437656 Whole brain, 24m, rep 4 [ONT]
- GSM7949060 Whole brain, 6m, rep 1
- GSM7949061 Whole brain, 6m, rep 2
- GSM7949062 Whole brain, 6m, rep 3
- GSM7949063 Whole brain, 6m, rep 4
- GSM7949064 Whole brain, 24m, rep 1
- GSM7949065 Whole brain, 24m, rep 2
- GSM7949066 Whole brain, 24m, rep 3
- GSM7949067 Whole brain, 24m, rep 4
- GSE282096 Diminished transcriptional activity and splicing changes drive gene length-biased rewiring in the aging transcriptome (RNA-Seq) 94 samples shares splicing, changes
- GSE306925 Aberrant mRNA Splicing and Impaired Hippocampal Neurogenesis in Grin2b Mutant Mice [grin2b_snRNAseq] 32 samples shares splicing, mrna
- GSE225651 Brain changes in responses of mice to intracerebral hemorrhage at the acute stages 12 samples shares changes, brain
- GSE282097 Diminished transcriptional activity and splicing changes drive gene length-biased rewiring in the aging transcriptome 116 samples shares splicing, changes
- GSE318803 Diminished transcriptional activity and splicing changes drive gene length-biased rewiring in the aging transcriptome (CUT&Run) 16 samples shares splicing, changes
- GSE265909 yHSC and oHSC scRNAseq with oHSC AThi ATlo Index Sorting. Assessing the transcriptional changes associated with autophagy engagement in old hematopoietic stem cells at single cell resolution. [scRNA-Seq] 563 samples shares changes
- GSE299937 Srrm2 haploinsufficiency drives SynGAP-γ reduction, Agap3 mis-splicing, and oligodendrocyte deficits in a genetic mouse model of schizophrenia 180 samples shares splicing
- GSE275510 Deciphering Motor Dysfunction and Microglial Activation in mThy1-α-Synuclein Mice: A Comprehensive Study of Behavioral, Gene Experssion, and Methylation Changes [RNA-Seq] 20 samples shares changes
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.