Transcriptomic profiling of brain-infiltrating and peripheral CD4+Foxp3+ Tregs following traumatic brain injury and nasal anti-CD3 treatment
RNA-seq (gene expression) · mouse · 12 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
- 12 samples: 12 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.
- Paper
- Nasal anti-CD3 monoclonal antibody ameliorates traumatic brain injury, enhances microglial phagocytosis and reduces neuroinflammation via IL-10-dependent T(reg)-microglia crosstalkNature neuroscience · 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 GSE276646_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 PRJNA1154926 and SRA study SRP529929. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 12 sample titles: 12 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.
- GSM8503548 Sham_1_Treg_Brain
- GSM8503549 Sham_2_Treg_Brain
- GSM8503550 TBI_Iso_1_Treg_Brain
- GSM8503551 TBI_Iso_2_Treg_Brain
- GSM8503552 TBI_aCD3_1_Treg_Brain
- GSM8503553 TBI_aCD3_2_Treg_Brain
- GSM8503554 Sham_1_Treg_Blood
- GSM8503555 Sham_2_Treg_Blood
- GSM8503556 TBI_Iso_1_Treg_Blood
- GSM8503557 TBI_Iso_2_Treg_Blood
- GSM8503558 TBI_aCD3_1_Treg_Blood
- GSM8503559 TBI_aCD3_2_Treg_Blood
- GSE276647 Gene expression profile of microglia following traumatic brain injury and nasal anti-CD3 treatment at acute and chronic timepoints 54 samples shares anti-cd3, following, traumatic, treatment
- GSE276648 Effect of blocking the IL-10 receptor on the microglial transcriptomic signature following chronic traumatic brain injury and nasal anti-CD3 treatment 12 samples shares anti-cd3, following, traumatic, treatment
- GSE310947 Soluble CD137 produced by Foxp3+ regulatory CD4 T cells is immunosuppressive and restrains ongoing autoimmune diabetes 15 samples shares foxp3, cd4
- GSE267767 Myeloid lineage (CD45+ CD11b+ cells) analysis sorted from stromal vascular fraction of visceral and subcutaneous adiposetissue in mice in different diet conditions or after rosiglitazone treatment 16 samples shares cd4, treatment
- GSE275350 Effect of anti-CD3 antibody treatment on islet transcriptomes in the nonobese diabetic (NOD) mouse model 12 samples shares anti-cd3, treatment
- GSE255409 Single-cell RNA sequencing of CD45 positive cells in spleen, bone marrow, colon and periphral blood from WT and Wnt5 DKO mice under DSS treatment 10 samples shares cd4, treatment
- GSE275471 Proximity-dependent labeling identifies dendritic cells that prime the antitumor CD4+ T cell response 857 samples shares cd4
- GSE278003 Single cell RNA sequencing of CD45+ immune cells from tumor and tumor-adjacent mammary adipose tissue in a postmenopausal breast cancer model of lean, obese, and weight loss Trem2+/+ and Trem2-/- mice 92 samples shares cd4
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.