GEO series
Regulation of ILC2s by Brg1
GSE279674
Mus musculus (mouse)
ChIP-seq / ATAC-seq (genome binding and open chromatin)
30 samples
Submitted 2025/09/17
Platform GPL24247Platform GPL30215
At a glance
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 30 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
- 30 samples: 13 conditions, mostly in duplicateGroups 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
- Brg1-imprinted chromatin status controls effector and memory group 2 innate lymphoid cell metabolism to exacerbate allergic lung inflammationThe Journal of allergy and clinical immunology · 2026
Summary (written by the submitters)
The chromatin status fluctuates with effector and memory group 2 innate lymphoid cell (ILC2) responses. How this intricate coordination affects allergic lung inflammation remains unclear. Here, we report that during papain-induced lung inflammation, the expression of chromatin remodeler Brg1 is upregulated by IL-33 in ILC2s, accompanied with more open chromatin regions having increased accessibility.
Read the full summary ↓
Brg1 expression is also upregulated in asthma patients’ ILC2s. Ablating Brg1 constrains ILC2 expansion and ameliorates both acute and alarmin-rechallenged secondary lung inflammation. Mechanistically, Brg1 imprints the chromatin landscape favoring aerobic glycolysis, the metabolic process reinforced in effector and memory ILC2s, to facilitate ILC2 expansion. Particularly, Brg1-augmented Hif1a enhancer accessibility is a sustained epigenetic signature in memory ILC2s inherited from effector ILC2s, and Hif1a enhances effector and memory ILC2 responses. Pharmacological inhibition of Brg1, rather than dexamethasone treatment, in acute phase is sufficient to alleviate secondary lung inflammation, highlighting Brg1 as a promising therapeutic target.
Published in
Tang J, Sun H, Chang H et al.
· The Journal of allergy and clinical immunology 2026
· PMID 40972980
· doi:10.1016/j.jaci.2025.08.029
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 GSE279674_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 peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.
Also filed as BioProject PRJNA1174056 and SRA study SRP539097. Searching any of these in the dataset finder brings you back here.
Study design
13 conditions, mostly in duplicate
naïve Lung ILC2,PBS, 3days, ATAC-seq, ×2
effector Lung ILC2, 30ug papain, 3 days, ATAC… ×2
memory Lung ILC2, 30ug papain, 3 days and wai… ×2
Lung, PBS, 3 days, RNA-seq, ×2
Lung, 30ng papain, 3 days, RNA-seq, ×2
lung, PBS, 4 days, Cut&Tag, ×2
lung, 500ng IL-33, 4 days, Cut&Tag, ×2
KO lung, 500ng IL-33, 4 days, Input, ×2
+9 more
Supports a between-group comparison across 26 samples.
How we read this: 13 replicated groups read from 30 sample titles; they account for 26 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
- GSM8577701 naïve Lung ILC2,PBS, 3days, ATAC-seq, replicate1 naïve Lung ILC2,PBS, 3d…
- GSM8577702 naïve Lung ILC2,PBS, 3days, ATAC-seq, replicate2 naïve Lung ILC2,PBS, 3d…
- GSM8577703 effector Lung ILC2, 30ug papain, 3 days, ATAC-seq, replicate1 effector Lung ILC2, 30u…
- GSM8577704 effector Lung ILC2, 30ug papain, 3 days, ATAC-seq, replicate2 effector Lung ILC2, 30u…
- GSM8577705 memory Lung ILC2, 30ug papain, 3 days and waiting for 2 months, ATAC-seq, replicate1 memory Lung ILC2, 30ug …
- GSM8577706 memory Lung ILC2, 30ug papain, 3 days and waiting for 2 months, ATAC-seq, replicate2 memory Lung ILC2, 30ug …
- GSM8577707 Lung, PBS, 3 days, RNA-seq, replicate1 Lung, PBS, 3 days, RNA-…
- GSM8577708 Lung, PBS, 3 days, RNA-seq, replicate2 Lung, PBS, 3 days, RNA-…
- GSM8577709 Lung, 30ng papain, 3 days, RNA-seq, replicate1 Lung, 30ng papain, 3 da…
- GSM8577710 Lung, 30ng papain, 3 days, RNA-seq, replicate2 Lung, 30ng papain, 3 da…
- GSM8577711 lung, PBS, 4 days, Cut&Tag, replicate1 lung, PBS, 4 days, Cut&…
- GSM8577712 lung, PBS, 4 days, Cut&Tag, replicate2 lung, PBS, 4 days, Cut&…
- GSM8577713 lung, 500ng IL-33, 4 days, Cut&Tag, replicate1 lung, 500ng IL-33, 4 da…
- GSM8577714 lung, 500ng IL-33, 4 days, Cut&Tag, replicate2 lung, 500ng IL-33, 4 da…
- GSM8577715 KO lung, 500ng IL-33, 4 days, Input, replicate1 KO lung, 500ng IL-33, 4…
- GSM8577716 KO lung, 500ng IL-33, 4 days, Input, replicate2 KO lung, 500ng IL-33, 4…
- GSM8577717 WT Lung, 500ng IL-33, 4 days, RNA-seq, replicate1 WT Lung, 500ng IL-33, 4…
- GSM8577718 WT Lung, 500ng IL-33, 4 days, RNA-seq, replicate2 WT Lung, 500ng IL-33, 4…
- GSM8577719 KO Lung, 500ng IL-33, 4 days, RNA-seq, replicate1 KO Lung, 500ng IL-33, 4…
- GSM8577720 KO Lung, 500ng IL-33, 4 days, RNA-seq, replicate2 KO Lung, 500ng IL-33, 4…
- GSM8577721 WT female Lung, IL-33, 4 days, ATAC-seq, replicate1 WT female Lung, IL-33, …
- GSM8577722 WT female Lung, IL-33, 4 days, ATAC-seq, replicate2 WT female Lung, IL-33, …
- GSM8577723 WT male Lung, IL-33, 4 days, ATAC-seq, replicate3
- GSM8577724 KO female Lung, IL-33, 4 days, ATAC-seq, replicate1 KO female Lung, IL-33, …
- GSM8577725 KO female Lung, IL-33, 4 days, ATAC-seq, replicate2 KO female Lung, IL-33, …
- GSM8577726 KO male Lung, IL-33, 4 days, ATAC-seq, replicate3
- GSM8577727 WT Lung, 30 μg papain in 25 μl PBS every day for 3 days, ATAC-seq, replicate1 WT Lung, 30 μg papain i…
- GSM8577728 WT Lung, 30 μg papain in 25 μl PBS every day for 3 days, ATAC-seq, replicate2 WT Lung, 30 μg papain i…
- GSM8577729 KO Lung, 30 μg papain in 25 μl PBS every day for 3 days, ATAC-seq, replicate1
- GSM8577730 KO Lung, 30 μg papain in 25 μl PBS every day for 3 days,ATAC-seq, replicate2
Datasets on a similar topic
- GSE279669 Regulation of ILC2s by Brg1 (CUTandTag) 6 samples shares ilc2s, brg1
- GSE279667 Regulation of ILC2s by Brg1 (ATAC-seq on ILC2nav ILC2eff ILC2mem) 6 samples shares ilc2s, brg1
- GSE279671 Regulation of ILC2s by Brg1 (ATAC-seq on WT and KO ILC2eff) 6 samples shares ilc2s, brg1
- GSE279670 Regulation of ILC2s by Brg1 (RNA-seq on WT and KO ILC2eff) 4 samples shares ilc2s, brg1
- GSE279668 Regulation of ILC2s by Brg1 (RNA-seq on ILC2nav ILC2eff) 4 samples shares ilc2s, brg1
- GSE279672 Regulation of ILC2s by Brg1 (ATAC-seq on WT and KO ILC2mem) 4 samples shares ilc2s, brg1
- GSE295748 Brg1 defect causes aberrent nucleosome landscape and affects totipotency & pluripotency transcriptional factors binding during embryogenesis 12 samples shares brg1
- GSE156569 BRG1 contributes to the global chromatin accessibility revealed by its acute depletion 102 samples shares brg1
Share this dataset
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