Cross-talk between ILC2 and Gata3high Treg locally constrains adaptive type 2 immunity
RNA-seq (gene expression) · mouse · 41 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
- 41 samples: 9 conditions, mostly with about 5 replicates eachGroups 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
- Cross-talk between ILC2 and Gata3(high) T(regs) locally constrains adaptive type 2 immunityScience immunology · 2024
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 GSE230599_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 PRJNA961816 and SRA study SRP434466. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 41 samples.
How we read this: 9 replicated groups read from 41 sample titles; they account for 41 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.
- GSM7229617 Tconv cells, KO, rep1 Tconv cells, KO,
- GSM7229618 Tconv cells, KO, rep2 Tconv cells, KO,
- GSM7229619 Tconv cells, KO, rep4 Tconv cells, KO,
- GSM7229620 Tconv cells, KO, rep5 Tconv cells, KO,
- GSM7229621 Tconv cells, WT, rep1 Tconv cells, WT,
- GSM7229622 Tconv cells, WT, rep2 Tconv cells, WT,
- GSM7229623 Tconv cells, WT, rep3 Tconv cells, WT,
- GSM7229624 Tconv cells, WT, rep5 Tconv cells, WT,
- GSM7229625 Tconv cells, WT, rep6 Tconv cells, WT,
- GSM7229626 Tconv cells, WT, rep7 Tconv cells, WT,
- GSM7229627 Treg cells, KO, rep1 Treg cells, KO,
- GSM7229628 Treg cells, KO, rep2 Treg cells, KO,
- GSM7229629 Treg cells, KO, rep4 Treg cells, KO,
- GSM7229630 Treg cells, KO, rep5 Treg cells, KO,
- GSM7229631 Treg cells, WT, rep1 Treg cells, WT,
- GSM7229632 Treg cells, WT, rep2 Treg cells, WT,
- GSM7229633 Treg cells, WT, rep5 Treg cells, WT,
- GSM7229634 Treg cells, WT, rep6 Treg cells, WT,
- GSM7229635 Treg cells, WT, rep7 Treg cells, WT,
- GSM7229636 ILC2 cells, rep4 ILC2 cells,
- GSM7229637 ILC2 cells, rep5 ILC2 cells,
- GSM7229638 Tconv cells, rep1 Tconv cells,
- GSM7229639 Tconv cells, rep2 Tconv cells,
- GSM7229640 Tconv cells, rep3 Tconv cells,
- GSM7229641 Tconv cells, rep4 Tconv cells,
- GSM7229642 Tconv cells, rep5 Tconv cells,
- GSM7229643 Th2 cells, rep1 Th2 cells,
- GSM7229644 Th2 cells, rep2 Th2 cells,
- GSM7229645 Th2 cells, rep3 Th2 cells,
- GSM7229646 Th2 cells, rep4 Th2 cells,
- GSM7229647 Th2 cells, rep5 Th2 cells,
- GSM7229648 TregGata3hi cells, rep1 TregGata3hi cells,
- GSM7229649 TregGata3hi cells, rep2 TregGata3hi cells,
- GSM7229650 TregGata3hi cells, rep3 TregGata3hi cells,
- GSM7229651 TregGata3hi cells, rep4 TregGata3hi cells,
- GSM7229652 TregGata3hi cells, rep5 TregGata3hi cells,
- GSM7229653 TregGata3lo cells, rep1 TregGata3lo cells,
- GSM7229654 TregGata3lo cells, rep2 TregGata3lo cells,
- GSM7229655 TregGata3lo cells, rep3 TregGata3lo cells,
- GSM7229656 TregGata3lo cells, rep4 TregGata3lo cells,
+ 1 more — browse all 41 samples with per-sample file links →
- GSE243691 ILC2-derived LIF licences progression from tissue-localized to systemic immunity 28 samples shares ilc2, immunity
- GSE253295 Sexual dimorphism in skin immunity is mediated by androgen-ILC2-dendritic cell axis 24 samples shares ilc2, immunity
- GSE230597 Bulk RNA-seq of ILC2, Tconv, Th2, Treg Gata3hi and Treg Gatalo from the lungs of IL-33 treated mice 22 samples shares ilc2, treg
- GSE253293 Sexual dimorphism in skin immunity is mediated by androgen-ILC2-dendritic cell axis [Bulk RNA-seq] 16 samples shares ilc2, immunity
- GSE272723 PAC1 constrains type II inflammation through promotion of CGRP signaling in ILC2s [RNA-seq] 16 samples shares ilc2, constrains
- GSE242147 CRISPR-Cas screen in ILC2 identifies Mef2d as a regulator of GATA3 and type-2 immunity 36 samples shares ilc2, immunity
- GSE242030 CRISPR-Cas screen in ILC2 identifies Mef2d as a regulator of GATA3 and type-2 immunity [ChIP-Seq] 17 samples shares ilc2, immunity
- GSE272722 PAC1 constrains type II inflammation through promotion of CGRP signaling in ILC2s [FastATAC-seq] 8 samples shares ilc2, constrains
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.