GEO series

Tyrosine phosphorylation of both STAT5A and STAT5B is necessary for maximal IL-2 signaling and its mitogenic action

GSE247343 Mus musculus (mouse) ChIP-seq / ATAC-seq (genome binding and open chromatin) 57 samples Submitted 2024/05/10 Platform GPL24247

At a glance

ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 57 samples

What it is: ChIP-seq / ATAC-seq (genome binding and open chromatin)Where proteins bind the genome, or which regions are open and active.
Organism: Mus musculus (mouse)
Samples: 57 samples: 16 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: Tyrosine phosphorylation of both STAT5A and STAT5B is necessary for maximal IL-2 signaling and T cell proliferationNature communications · 2024

Summary (written by the submitters)

STAT5 proteins are vital for lymphocyte development and function. Cytokine activation of STAT5A and STAT5B involves the tyrosine phosphorylation of a C-terminal tyrosine in each protein; however, the importance of STAT5 tyrosine phosphorylation in vivo has not been assessed. Here we generated Stat5a and Stat5b tyrosine mutant knockin mice and found they had greatly reduced CD8+ T-cell numbers.

Read the full summary ↓

Morever, these cells exhibited profoundly diminished IL-2-induced proliferation, correlating with reduced IL-2- mediated induction of Myc, pRB, a range of cyclins and CDKs, and a G1àS phase- transition block. The mutant CD8+ T cells also exhibited decreased IL-2-mediated activation of pERK and pAKT, which can in part be attributed to diminished IL-2-induced expression of IL-2Rb and IL-2Rg. Our findings demonstrate that tyrosine phosphorylation of both STAT5A and STAT5B is essential for maximal IL-2 signaling, and our transcriptomic and proteomic analyses elucidate the molecular basis for the mitogenic effects of IL-2 on CD8+ T cells.

Published in

Tyrosine phosphorylation of both STAT5A and STAT5B is necessary for maximal IL-2 signaling and T cell proliferation

Lin JX, Ge M, Liu CY et al. · Nature communications 2024 · PMID 39191751 · doi:10.1038/s41467-024-50925-6

This dataset

Open GSE247343 in finder → Find more mouse RNA-seq datasets →

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.

Series matrix ↓

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 GSE247343_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓

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.

Raw reads on ENA ↗

What the files usually look like: Look for peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.

Also filed as BioProject PRJNA1037130 and SRA study SRP470869. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 39191751) ↗

Study design

16 conditions, mostly in triplicate

RNASeq STAT5A.0h.WT ×3 RNASeq STAT5A.0h.KI ×3 RNASeq STAT5A.4h.WT ×3 RNASeq STAT5A.4h.KI ×3 RNASeq STAT5A.24h.WT ×3 RNASeq STAT5A.24h.KI ×3 RNASeq STAT5A.48h.WT ×3 RNASeq STAT5A.48h.KI ×3 +17 more

Supports a between-group comparison across 48 samples.

How we read this: 16 replicated groups read from 57 sample titles; they account for 48 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.

Samples in this study

GSM7887458 RNASeq STAT5A.0h.WT rep1 RNASeq STAT5A.0h.WT
GSM7887459 RNASeq STAT5A.0h.WT rep2 RNASeq STAT5A.0h.WT
GSM7887460 RNASeq STAT5A.0h.WT rep3 RNASeq STAT5A.0h.WT
GSM7887461 RNASeq STAT5A.0h.KI rep1 RNASeq STAT5A.0h.KI
GSM7887462 RNASeq STAT5A.0h.KI rep2 RNASeq STAT5A.0h.KI
GSM7887463 RNASeq STAT5A.0h.KI rep3 RNASeq STAT5A.0h.KI
GSM7887464 RNASeq STAT5A.4h.WT rep1 RNASeq STAT5A.4h.WT
GSM7887465 RNASeq STAT5A.4h.WT rep2 RNASeq STAT5A.4h.WT
GSM7887466 RNASeq STAT5A.4h.WT rep3 RNASeq STAT5A.4h.WT
GSM7887467 RNASeq STAT5A.4h.KI rep1 RNASeq STAT5A.4h.KI
GSM7887468 RNASeq STAT5A.4h.KI rep2 RNASeq STAT5A.4h.KI
GSM7887469 RNASeq STAT5A.4h.KI rep3 RNASeq STAT5A.4h.KI
GSM7887470 RNASeq STAT5A.24h.WT rep1 RNASeq STAT5A.24h.WT
GSM7887471 RNASeq STAT5A.24h.WT rep2 RNASeq STAT5A.24h.WT
GSM7887472 RNASeq STAT5A.24h.WT rep3 RNASeq STAT5A.24h.WT
GSM7887473 RNASeq STAT5A.24h.KI rep1 RNASeq STAT5A.24h.KI
GSM7887474 RNASeq STAT5A.24h.KI rep2 RNASeq STAT5A.24h.KI
GSM7887475 RNASeq STAT5A.24h.KI rep3 RNASeq STAT5A.24h.KI
GSM7887476 RNASeq STAT5A.48h.WT rep1 RNASeq STAT5A.48h.WT
GSM7887477 RNASeq STAT5A.48h.WT rep2 RNASeq STAT5A.48h.WT
GSM7887478 RNASeq STAT5A.48h.WT rep3 RNASeq STAT5A.48h.WT
GSM7887479 RNASeq STAT5A.48h.KI rep1 RNASeq STAT5A.48h.KI
GSM7887480 RNASeq STAT5A.48h.KI rep2 RNASeq STAT5A.48h.KI
GSM7887481 RNASeq STAT5A.48h.KI rep3 RNASeq STAT5A.48h.KI
GSM7887482 RNASeq STAT5B.0h.WT rep1 RNASeq STAT5B.0h.WT
GSM7887483 RNASeq STAT5B.0h.WT rep2 RNASeq STAT5B.0h.WT
GSM7887484 RNASeq STAT5B.0h.WT rep3 RNASeq STAT5B.0h.WT
GSM7887485 RNASeq STAT5B.0h.KI rep1 RNASeq STAT5B.0h.KI
GSM7887486 RNASeq STAT5B.0h.KI rep2 RNASeq STAT5B.0h.KI
GSM7887487 RNASeq STAT5B.0h.KI rep3 RNASeq STAT5B.0h.KI
GSM7887488 RNASeq STAT5B.4h.WT rep1 RNASeq STAT5B.4h.WT
GSM7887489 RNASeq STAT5B.4h.WT rep2 RNASeq STAT5B.4h.WT
GSM7887490 RNASeq STAT5B.4h.WT rep3 RNASeq STAT5B.4h.WT
GSM7887491 RNASeq STAT5B.4h.KI rep1 RNASeq STAT5B.4h.KI
GSM7887492 RNASeq STAT5B.4h.KI rep2 RNASeq STAT5B.4h.KI
GSM7887493 RNASeq STAT5B.4h.KI rep3 RNASeq STAT5B.4h.KI
GSM7887494 RNASeq STAT5B.24h.WT rep1 RNASeq STAT5B.24h.WT
GSM7887495 RNASeq STAT5B.24h.WT rep2 RNASeq STAT5B.24h.WT
GSM7887496 RNASeq STAT5B.24h.WT rep3 RNASeq STAT5B.24h.WT
GSM7887497 RNASeq STAT5B.24h.KI rep1 RNASeq STAT5B.24h.KI

+ 17 more — browse all 57 samples with per-sample file links →

Datasets on a similar topic

GSE270652 Human mutations, altering a single tyrosine in the STAT5B SH2 domain, have opposing impacts on enhancer function and mammary development 65 samples shares stat5b, tyrosine
GSE276311 Two mutations associated with leukemia that change a single tyrosine residue in the STAT5B SH2 domain have opposite effects on the transcriptional programs controlling hematopoiesis [RNA-seq] 61 samples shares stat5b, tyrosine
GSE276312 Two mutations associated with leukemia that change a single tyrosine residue in the STAT5B SH2 domain have opposite effects on the transcriptional programs controlling hematopoiesis [scRNA-seq] 23 samples shares stat5b, tyrosine
GSE270656 Human mutations, altering a single tyrosine in the STAT5B SH2 domain, have opposing impacts on enhancer function and mammary development [RNA-seq] 18 samples shares stat5b, tyrosine
GSE276308 Two mutations associated with leukemia that change a single tyrosine residue in the STAT5B SH2 domain have opposite effects on the transcriptional programs controlling hematopoiesis [ChIP-seq] 13 samples shares stat5b, tyrosine
GSE284481 Ruxolitinib mediated paradox JAK2 hyperphosphorylation is due to the protection of activation loop phosphotyrosines from phosphatases 21 samples shares phosphorylation, tyrosine
GSE250579 Satb1 directs the differentiation of TH17 cells through suppression of IL-2 expression 20 samples shares il-2
GSE269703 Microbiota-derived polyphosphates govern mucosal immunity through multilevel suppression of STAT/IL-27 signaling (multiome) 16 samples shares il-2

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