GEO series

Transglutaminase 2 Deletion Enhances Astrocyte-to-Neuron Metabolic Support and Attenuates Subacute Pathology Following Repetitive Mild Traumatic Brain Injury

GSE337851 Mus musculus (mouse) ChIP-seq / ATAC-seq (genome binding and open chromatin) 12 samples Submitted 2026/07/16 Platform GPL34290

At a glance

ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 12 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: 12 samples: 2 × WT_Sham_K9 vs 2 × WT_Inj_K9 vs 2 × TG2KO_Sham_K9 vs 2 × TG2KO_Inj_K9Groups 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)

Mild traumatic brain injury (mTBI) is the most common form of central nervous system (CNS) injury and is often characterized by persistent neuroinflammation, metabolic dysregulation, and oxidative stress. Repetitive injuries compound these pathologies and lead to multifocal axonal injuries and long-term functional deficits. Despite the prevalence of mTBIs, the cellular mechanisms that facilitate or prevent recovery following injury remain poorly defined.

Read the full summary ↓

Here, we extend our previous work on the role of the protein transglutaminase 2 (TG2) in CNS injury and we hypothesize that transcriptional regulation by TG2 restricts metabolic versatility in astrocytes following TBI, thereby impairing neuronal energetic support and worsening pathological outcomes. We utilized an established weight-drop model of repetitive mTBI followed by multi-parametric analysis of TBI pathology in complete TG2 knockout and wild type mice. At 28 days post-injury, TG2-/- mice showed marked attenuation of TBI pathology, compared to wild type mice, in vulnerable white matter and default mode network (DMN) brain regions, as assessed by functional MRI, diffusion MRI, and immunohistochemistry. Integrated epigenomic, proteomic, and metabolomic profiling of cortical astrocytes isolated 28 days after injury revealed a pronounced metabolic restriction in wild type astrocytes which was attenuated in the TG2-/- mice. This rescue was associated with a de-repression of gene networks involved in lipid metabolism and metabolic homeostasis. Together, these studies provide mechanistic insights on the metabolic dysregulation that characterizes persistent TBI pathology and they establish a foundation for evaluating TG2 as a therapeutic target for TBI.

This dataset

Open GSE337851 in finder → Find more mouse ChIP / ATAC / CUT&Tag 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 GSE337851_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 PRJNA1491362 and SRA study SRP715994. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Study design

2 × WT_Sham_K9 vs 2 × WT_Inj_K9 vs 2 × TG2KO_Sham_K9 vs 2 × TG2KO_Inj_K9

Supports a between-group comparison across 8 samples.

How we read this: 4 replicated groups read from 12 sample titles; they account for 8 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

GSM9861425 WT_Sham_IgG
GSM9861426 WT_Sham_K9_rep1 WT_Sham_K9
GSM9861427 WT_Sham_K9_rep2 WT_Sham_K9
GSM9861428 WT_Inj_IgG
GSM9861429 WT_Inj_K9_rep1 WT_Inj_K9
GSM9861430 WT_Inj_K9_rep2 WT_Inj_K9
GSM9861431 TG2KO_Sham_IgG
GSM9861432 TG2KO_Sham_K9_rep1 TG2KO_Sham_K9
GSM9861433 TG2KO_Sham_K9_rep2 TG2KO_Sham_K9
GSM9861434 TG2KO_Inj_IgG
GSM9861435 TG2KO_Inj_K9_rep1 TG2KO_Inj_K9
GSM9861436 TG2KO_Inj_K9_rep2 TG2KO_Inj_K9

Datasets on a similar topic

GSE275958 CSF1-R inhibition attenuates posttraumatic osteoarthritis and quadriceps atrophy following ligament injury II 16 samples shares attenuates, following, traumatic
GSE297399 Viral-mediated knockdown of Atxn2 attenuates TDP-43 pathology and muscle dysfunction in the PFN1C71G ALS mouse model 52 samples shares attenuates, pathology
GSE309118 Hepatocyte-specific epidermal growth factor receptor (EGFR) deletion attenuates acetaminophen-induced liver injury in mice 42 samples shares attenuates, deletion
GSE301765 Deletion of AT1a (Angiotensin II Type 1a) Receptor or Inhibition of Angiotensinogen Synthesis Attenuates Thoracic Aortopathies in Fibrillin1C1041G/+ Mice 26 samples shares attenuates, deletion
GSE309115 Hepatocyte-specific epidermal growth factor receptor (EGFR) deletion attenuates acetaminophen-induced liver injury in mice [RNA-seq AVITI] 24 samples shares attenuates, deletion
GSE324086 Hereditary spastic paraplegia (HSP) gene 11 (SPG11) attenuates lipid accumulation in myeloid cells and neuroinflammation independent of α-synuclein pathology 20 samples shares attenuates, pathology
GSE309117 Hepatocyte-specific epidermal growth factor receptor (EGFR) deletion attenuates acetaminophen-induced liver injury in mice [RNA-seq Illumina] 18 samples shares attenuates, deletion
GSE314708 Microglia TFEB Activation Attenuates Alzheimer’s Disease Pathology by Enhancing Autophagy-Lysosomal Function 18 samples shares attenuates, pathology

Search all mouse ChIP / ATAC / CUT&Tag datasets in GEO →

Share this dataset

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.