GEO series
Hyperactive STAT5 Hijacks T-Cell Receptor Signaling and Drives Immature T-Cell Acute Lymphoblastic Leukemia
GSE218858
Mus musculus (mouse)
RNA-seq (gene expression)
51 samples
Submitted 2024/04/15
Platform GPL13112
At a glance
RNA-seq (gene expression) · mouse · 51 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
- 51 samples: 51 samples, each with a distinct title — no replicated groupsGroups 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.
Summary (written by the submitters)
T-cell acute lymphoblastic leukemia (T-ALL) is an aggressive immature T-cell cancer. Mutations in IL7RA were analyzed genetically, but downstream effector functions such as STAT5A/B hyperactivation are poorly understood. Here, we studied the most frequent and clinically challenging STAT5BN642H driver in T-cell development and immature T-cell cancer onset and compared it to STAT5A hyperactive variants in transgenic mice.
Read the full summary ↓
Enhanced STAT5 activity caused disrupted T-cell development and promoted an early T-cell progenitor (ETP)- ALL phenotype with upregulation of genes involved in T-cell receptor (TCR) signaling, even in absence of surface TCR. Importantly, TCR pathway genes were overexpressed in human T- ALL and mature T-cell cancers and activation of TCR pathway kinases was STAT5-dependent. We confirmed STAT5-binding to these genes using ChIP-seq analysis in human T-ALL cells, which were sensitive to pharmacologic inhibition by dual STAT3/5 degraders or ZAP70 tyrosine kinase blockers in vitro and in vivo. We provide first genetic and biochemical proof that STAT5A and STAT5B hyperactivation can initiate T-ALL through TCR pathway hijacking and suggest similar mechanisms for other T-cell cancers. Thus, STAT5 or TCR component blockade are targeted therapy options, particularly in patients with chemo-resistant clones carrying STAT5BN642H.
This dataset
Download · which file do I need?
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.
1 · Just have a look
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.
2 · Re-analyse it
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE218858_RAW.tar (it can run to tens of gigabytes).
3 · Start from the raw reads
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 PRJNA906030 and SRA study SRP410198. Searching any of these in the dataset finder brings you back here.
Study design
51 samples, each with a distinct title — no replicated groups
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 51 sample titles: 51 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.
Samples in this study
- GSM6757820 CD4, CD8 double negative thymocytes in Rag2 deficient background. Mouse 3 [R2a_DN_3]
- GSM6757821 CD4, CD8 double negative thymocytes in Rag2 deficient background. Mouse 4 [R2a_DN_4]
- GSM6757822 CD4, CD8 double negative thymocytes in Rag2 deficient background. Mouse 5 [R2a_DN_5]
- GSM6757823 CD4, CD8 double negative thymocytes in Stat5AS710F background. Mouse 1 [S5a_DN_1]
- GSM6757824 CD4, CD8 double negative thymocytes in Stat5AS710F background. Mouse 3 [S5a_DN_3]
- GSM6757825 CD4, CD8 double negative thymocytes in Stat5AS710F background. Mouse 6 [S5a_DN_6]
- GSM6757826 CD8 positive thymocytes in wildtype background. Mouse 1 [WT_CD8_1]
- GSM6757827 CD8 positive thymocytes in wildtype background. Mouse 2 [WT_CD8_2]
- GSM6757828 CD8 positive thymocytes in wildtype background. Mouse 5 [WT_CD8_5]
- GSM6757829 CD4, CD8 double negative thymocytes in wildtype background. Mouse 1 [WT_DN_1]
- GSM6757830 CD4, CD8 double negative thymocytes in wildtype background. Mouse 2 [WT_DN_2]
- GSM6757831 CD4, CD8 double negative thymocytes in wildtype background. Mouse 5 [WT_DN_5]
- GSM6757832 CD4, CD8 double positive thymocytes in wildtype background. Mouse 1 [WT_DP_1]
- GSM6757833 CD4, CD8 double positive thymocytes in wildtype background. Mouse 2 [WT_DP_2]
- GSM6757834 CD4, CD8 double positive thymocytes in wildtype background. Mouse 5 [WT_DP_5]
- GSM6757835 CD8 positive thymocytes in Rag deficient and Stat5aS710F background. Mouse 1 [R2S5a_CD8_1]
- GSM6757836 CD8 positive thymocytes in Rag deficient and Stat5aS710F background. Mouse 2 [R2S5a_CD8_2]
- GSM6757837 CD8 positive thymocytes in Rag deficient and Stat5aS710F background. Mouse 6 [R2S5a_CD8_6]
- GSM6757838 CD4, CD8 double negative in Rag deficient and Stat5aS710F background. Mouse 3 [R2S5a_DN_3]
- GSM6757839 CD4, CD8 double negative in Rag deficient and Stat5aS710F background. Mouse 4 [R2S5a_DN_4]
- GSM6757840 CD4, CD8 double negative in Rag deficient and Stat5aS710F background. Mouse 6 [R2S5a_DN_6]
- GSM6757841 CD4, CD8 double positive in Rag deficient and Stat5aS710F background. Mouse 3 [R2S5a_DP_3]
- GSM6757842 CD4, CD8 double positive in Rag deficient and Stat5aS710F background. Mouse 4 [R2S5a_DP_4]
- GSM6757843 CD4, CD8 double positive in Rag deficient and Stat5aS710F background. Mouse 6 [R2S5a_DP_6]
- GSM6757844 CD4 negative, CD8 positive thymocytes in Stat5AS710F background. Mouse 1 [S5a_CD8_1]
- GSM6757845 CD4 negative, CD8 positive thymocytes in Stat5AS710F background. Mouse 3 [S5a_CD8_3]
- GSM6757846 CD4 negative, CD8 positive thymocytes in Stat5AS710F background. Mouse 6 [S5a_CD8_6]
- GSM6757847 CD4 positive, CD8 positive thymocytes in Stat5AS710F background. Mouse 1 [S5a_DP_1]
- GSM6757848 CD4 positive, CD8 positive thymocytes in Stat5AS710F background. Mouse 3 [S5a_DP_3]
- GSM6757849 CD4 positive, CD8 positive thymocytes in Stat5AS710F background. Mouse 6 [S5a_DP_6]
- GSM6757850 CD4 negative, CD8 positive thymocytes in Stat5AS710F background. Mouse 104 [R2S5b_CD8_104]
- GSM6757851 CD4 negative, CD8 positive thymocytes in Stat5AS710F and Rag2 deficient backbackground. Mouse 104 [R2S5b_DN_104]
- GSM6757852 CD4 negative, CD8 positive thymocytes in Stat5AS710F background. Mouse 104 [R2S5b_DP_104]
- GSM6757853 CD4, CD8 double negative thymocytes in Rag2 deficient background. Mouse 106 [R2b_DN_106]
- GSM6757854 CD4 negative, CD8 positive thymocytes in Rag2 and STAT5BN642H double deficient background. Mouse 129 [R2S5b_CD8_129]
- GSM6757855 CD4, CD8 double positive thymocytes in Rag2 and STAT5BN642H double deficient background. Mouse 129 [R2S5b_DP_129]
- GSM6757856 CD4 negative, CD8 positive thymocytes in STAT5BN642H deficient background. Mouse 131 [S5b_CD8_131]
- GSM6757857 CD4, CD8 double negative thymocytes in STAT5BN642H deficient background. Mouse 131 [S5b_DN_131]
- GSM6757858 CD4, CD8 double positive thymocytes in STAT5BN642H deficient background. Mouse 131 [S5b_DP_131]
- GSM6757859 CD4 negative, CD8 positive thymocytes in STAT5BN642H deficient background. Mouse 132 [S5b_CD8_132]
+ 11 more — browse all 51 samples with per-sample file links →
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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.