The initial age-associated decline in early T-cell progenitors reflects fewer pre-thymic progenitors and altered signals in the bone marrow and thymus microenvironments
RNA-seq (gene expression) · mouse · 12 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
- 12 samples: 3 × 1MO CLP # vs 3 × 1MO MPP # vs 3 × 3MO CLP # vs 3 × 3MO MPP #Groups 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 GSE230723_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 PRJNA962454 and SRA study SRP434817. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 replicated groups read from 12 sample titles; they account for 12 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.
- GSM7233098 1MO CLP #1 1MO CLP #
- GSM7233099 1MO CLP #2 1MO CLP #
- GSM7233100 1MO CLP #3 1MO CLP #
- GSM7233101 1MO MPP #1 1MO MPP #
- GSM7233102 1MO MPP #2 1MO MPP #
- GSM7233103 1MO MPP #3 1MO MPP #
- GSM7233104 3MO CLP #1 3MO CLP #
- GSM7233105 3MO CLP #2 3MO CLP #
- GSM7233106 3MO CLP #3 3MO CLP #
- GSM7233107 3MO MPP #1 3MO MPP #
- GSM7233108 3MO MPP #2 3MO MPP #
- GSM7233109 3MO MPP #3 3MO MPP #
- GSE325919 Mitochondrial remodeling in skeletal muscle underlies exercise-induced reversal of age-associated functional decline in mice and humans 30 samples shares age-associated, decline
- GSE307834 Intestinal interoceptive dysfunction drives age-associated cognitive decline [RNA-Seq] 20 samples shares age-associated, decline
- GSE284125 Age-Associated Decline in Autophagy Pathways in the Retinal Pigment Epithelium and Protective Effects of Topical Trehalose in Light-Induced Outer Retinal Degeneration in Mice 12 samples shares age-associated, decline
- GSE317412 Dietary Glutamine Supplementation Mitigates Age-Associated Cardiac Decline by Restricting H3K27me3 14 samples shares age-associated, decline
- GSE326003 The differentiation of myeloid progenitors is effected by cascading waves of coordinated gene expression that remodel cellular physiology in a characteristic sequence [RNA-seq] 165 samples shares progenitors
- GSE289311 Erythropoietin Exposure Impairs B Cell Development and Promotes Myeloid-Imprinted Biphenotypic Progenitors 96 samples shares progenitors
- GSE260623 Germline ELP1 deficiency sensitizes cerebellar granule neuron progenitors to SHH medulloblastoma [bulkRNA] 91 samples shares progenitors
- GSE310560 Deep profiling of multiple mouse tumor microenvironments using scRNAseq 56 samples shares microenvironments
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.