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TET2_x001E_mediated PTPN6 demethylation drives post_x001E_burn immune paralysis and AAV_x001E_CRISPRi targeting PTPN6 improves secondary bloodstream infection outcome

GSE327575 Mus musculus (mouse) DNA methylation 12 samples Submitted 2026/04/30 Platform GPL24247
At a glance

DNA methylation · mouse · 12 samples

What it is
DNA methylationChemical marks on DNA that help switch genes on or off.
Organism
Mus musculus (mouse)
Samples
12 samples: 6 × burn vs 6 × shamGroups 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)
Background Severe burn injury often leads to a state of immune paralysis, which markedly increases the risk of death from secondary bloodstream infection. However, the molecular mechanisms underlying post_x001E_burn immune paralysis, especially why it worsens infectious outcomes, remain poorly understood. This study aimed to elucidate the epigenetic regulatory mechanisms of post_x001E_burn immune paralysis and to evaluate the therapeutic potential of targeted intervention for secondary bloodstream infection.
Read the full summary ↓
Methods A 30% total body surface area full_x001E_thickness (third_x001E_degree) burn model was established in C57BL/6J mice. Secondary bloodstream infection was induced by intravenous injection of Klebsiella pneumoniae or Pseudomonas aeruginosa on day 14 post_x001E_burn. Immune paralysis was assessed by monocyte phagocytosis, T_x001E_cell proliferation and IFN_x001E_γ secretion, and immune cell subset analysis. For mechanistic investigation, transcriptome sequencing was performed to identify key molecules, followed by bisulfite sequencing, molecular interaction assays, and in vivo CRISPRi/a_x001E_mediated knockdown or overexpression to delineate the epigenetic regulation and function. Finally, AAV_x001E_CRISPRi was used to knock down the target molecule in vivo, and its effects on immune paralysis and secondary infection outcomes were evaluated. Twenty_x001E_four severe burn patients and ten healthy volunteers were enrolled for clinical validation. Results Burn mice exhibited typical immune paralysis, characterized by decreased macrophage phagocytosis, impaired T_x001E_cell proliferation and IFN_x001E_γ secretion, increased M2/Treg ratios, and reduced pro_x001E_inflammatory cytokine levels. Mechanistically, PTPN6 was markedly up_x001E_regulated after burn and drove immune paralysis by suppressing the NF_x001E_κB and MAPK signaling pathways. Further investigation revealed that TET2 directly bound to the PTPN6 promoter and mediated its demethylation, leading to PTPN6 overexpression. In vivo knockdown of PTPN6 effectively alleviated immune paralysis, reduced bacterial load, attenuated multi_x001E_organ damage, and improved 14_x001E_day survival in burn mice (P < 0.01). Clinical sample analysis confirmed PTPN6 promoter demethylation, up_x001E_regulation of the TET2/PTPN6 axis, and immune dysfunction in peripheral blood of burn patients. Conclusions The key mechanism driving post_x001E_burn immune paralysis is “TET2_x001E_mediated PTPN6 promoter demethylation → PTPN6 up_x001E_regulation → suppression of NF_x001E_κB/MAPK pathways”. AAV_x001E_CRISPRi_x001E_mediated knockdown of PTPN6 effectively reverses immune paralysis and significantly improves the outcome of secondary bloodstream infection. This work provides a novel molecular basis for understanding post_x001E_burn immune dysfunction and identifies a potential therapeutic target for clinical intervention.
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 GSE327575_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: Look for beta-value tables or raw IDAT files among the supplementary files.

Also filed as BioProject PRJNA1451243 and SRA study SRP690658. Searching any of these in the dataset finder brings you back here.

Study design
6 × burn vs 6 × sham

Supports a between-group comparison across 12 samples.

How we read this: 2 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.

Samples in this study
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