ILC2 development requires GATA3-related super-enhancers after lineage commitment
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 17 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
- 17 samples: 17 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
- Stage-specific GATA3 induction promotes ILC2 development after lineage commitmentNature communications · 2024
Read the full summary ↓
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 GSE218155_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: Look for peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.
Also filed as BioProject PRJNA902420 and SRA study SRP408299. 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 17 sample titles: 17 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.
- GSM6735421 ATAC-seq_ILC2_steady_state
- GSM6735425 ChIP-seq_H3K27ac_CD4T_control
- GSM6735426 ChIP-seq_H3K27ac_CD4T_asthma
- GSM6735427 ChIP-seq_H3K27ac_ILC2_control
- GSM6735428 ChIP-seq_H3K27ac_ILC2_asthma
- GSM6735564 scRNA-seq_αLP_mRNA
- GSM6735565 scRNA-seq_αLP_hashtag
- GSM8150406 scRNA-seq_αLP_mRNA_v2 paired
- GSM8150407 scRNA-seq_αLP_hashtag_v2
- GSM8150425 ATAC-seq_G3SEKO_BM1_IL18Ra+ST2-PD1+IL17RB-
- GSM8150426 ATAC-seq_G3SEKO_BM2_IL18Ra+ST2-PD1+IL17RB+
- GSM8150427 ATAC-seq_G3SEKO_BM3_IL18Ra+ST2-PD1-IL17RB+
- GSM8150428 ATAC-seq_WT_BM1_IL18Ra+ST2-PD1+IL17RB-
- GSM8150429 ATAC-seq_WT_BM2_IL18Ra+ST2-PD1+IL17RB+
- GSM8150430 ATAC-seq_WT_BM3_IL18Ra+ST2-PD1-IL17RB+
- GSM8150431 ATAC-seq_WT_BM4_IL18Ra+ST2+PD1-IL17RB+
- GSM8150432 ATAC-seq_WT_BM5_IL18Ra-ST2+PD1-IL17RB+
- GSE298006 Stage-specific Epigenetic Priming Amplifies Gene Activation During Lineage Commitment [RNA-Seq] 110 samples shares commitment, lineage
- GSE266175 Plasticity and lineage commitment of individual Th1 cells are determined by stable T-bet expression quantities (ChIP-Seq) 84 samples shares commitment, lineage
- GSE308931 Treg cells retain stable lineage commitment during pregnancy in mice after late gestation inflammatory challenge 10 samples shares commitment, lineage
- GSE72857 Transcriptional heterogeneity and lineage commitment in myeloid progenitors [single cell RNA-seq] 54 samples shares commitment, lineage
- GSE298005 Stage-specific Epigenetic Priming Amplifies Gene Activation During Lineage Commitment [RELACS] 54 samples shares commitment, lineage
- GSE291914 Dnmt3a-dependent de novo DNA methylation enforces lineage commitment and preserves functionality of memory Th1 and Tfh cells 39 samples shares commitment, lineage
- GSE298002 Stage-specific Epigenetic Priming Amplifies Gene Activation During Lineage Commitment [CUT&Run] 38 samples shares commitment, lineage
- GSE298001 Stage-specific Epigenetic Priming Amplifies Gene Activation During Lineage Commitment [ATAC-Seq] 36 samples shares commitment, lineage
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.