Transcriptome analysis of bulk-HSCs, LT-HSCs and ST-HSCs.
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.
- Paper
- Alteration of long- and short-term hematopoietic stem cell ratio causes myeloid-biased hematopoiesiseLife · 2025
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 GSE226803_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 PRJNA941818 and SRA study SRP426428. 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.
- GSM7083910 Young_LT-HSCs_rep1 Young_LT-HSCs
- GSM7083911 Young_ST-HSCs_rep1 Young_ST-HSCs
- GSM7083912 Young_LT-HSCs_rep2 Young_LT-HSCs
- GSM7083913 Young_ST-HSCs_rep2 Young_ST-HSCs
- GSM7083914 Young_LT-HSCs_rep3 Young_LT-HSCs
- GSM7083915 Young_ST-HSCs_rep3 Young_ST-HSCs
- GSM7083916 Young_bulk-HSCs_rep1 Young_bulk-HSCs
- GSM7083917 Young_bulk-HSCs_rep2 Young_bulk-HSCs
- GSM7083918 Young_bulk-HSCs_rep3 Young_bulk-HSCs
- GSM7083919 Aged_LT-HSCs_rep1 Aged_LT-HSCs
- GSM7083920 Aged_ST-HSCs_rep1 Aged_ST-HSCs
- GSM7083921 Aged_LT-HSCs_rep2 Aged_LT-HSCs
- GSM7083922 Aged_ST-HSCs_rep2 Aged_ST-HSCs
- GSM7083923 Aged_LT-HSCs_rep3 Aged_LT-HSCs
- GSM7083924 Aged_ST-HSCs_rep3 Aged_ST-HSCs
- GSM7083925 Aged_bulk-HSCs_rep1 Aged_bulk-HSCs
- GSM7083926 Aged_bulk-HSCs_rep2 Aged_bulk-HSCs
- GSM7083927 Aged_bulk-HSCs_rep3 Aged_bulk-HSCs
- GSE249609 Transcriptome data of bone marrow long-term hematopoietic stem cells (LT-HSCs) from mice with or without 3-month serine/glycine-free diet (SGFD) treatment. 6 samples shares lt-hscs
- GSE278044 RNA-seq Analysis of Wild-Type and Dcaf8 Knockout LT-HSCs in Mice 6 samples shares lt-hscs
- GSE255253 Effects of the treatment with pegIFNa, Azacytidine or pegIFNa+Azacytidine in LT-HSCs from JAK2-V617F MPN mice or JAK2-V617F;Dnmt3a-KO MPN mice. 31 samples shares lt-hscs
- GSE225918 Gene expression profile at single cell level of phenotypic LT-HSCs from single-mutant JAK2 V617F and double mutant JAK2 V617F;Dnmt3a-/- mice 16 samples shares lt-hscs
- GSE198442 Ex vivo cultured mouse LT-HSCs RNA-seq 15 samples shares lt-hscs
- GSE236765 RNA sequencing of LT-HSCs in the bone marrow from WT and Trim47-/- mice untreated or treated with 5-FU for 10 days 12 samples shares lt-hscs
- GSE233828 RNA sequencing of Mmrn1-high LT-HSCs and Mmrn1-low LT-HSCs from murine bone marrow 6 samples shares lt-hscs
- GSE236767 RNA sequencing of eGFPlo and eGFPhi LT-HSCs in the bone marrow from Trim47+/eGFP mice 6 samples shares lt-hscs
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.