Non-canonical PRC1.1 licenses transcriptional response to enable Treg plasticity in immune adaptation [RNA-Seq]
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: 6 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.
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 GSE249979_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 PRJNA1051551 and SRA study SRP477554. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 2 samples read as cases, 2 as controls.
How we read this: 6 replicated groups read from 12 sample titles; they account for 12 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.
- GSM7968398 WT Treg, rep1 WT Treg,
- GSM7968399 WT Treg, rep2 WT Treg,
- GSM7968400 cKO Treg, rep1 cKO Treg,
- GSM7968401 cKO Treg, rep2 cKO Treg,
- GSM7968402 WT Treg, in vitro, unstimulated, rep1 WT Treg, in vitro, unst…
- GSM7968403 WT Treg, in vitro, unstimulated, rep2 WT Treg, in vitro, unst…
- GSM7968404 WT Treg, in vitro, stimulated, rep1 WT Treg, in vitro, stim…
- GSM7968405 WT Treg, in vitro, stimulated, rep2 WT Treg, in vitro, stim…
- GSM7968406 cKO Treg, in vitro, unstimulated, rep1 cKO Treg, in vitro, uns…
- GSM7968407 cKO Treg, in vitro, unstimulated, rep2 cKO Treg, in vitro, uns…
- GSM7968408 cKO Treg, in vitro, stimulated, rep1 cKO Treg, in vitro, sti…
- GSM7968409 cKO Treg, in vitro, stimulated, rep2 cKO Treg, in vitro, sti…
- GSE327645 BACH1 acts as a pioneer repressor to enable macrophage plasticity and adaptation across tissues and inflammatory contexts [RNA-seq/ATAC-seq] 28 samples shares plasticity, adaptation, rna-seq, enable
- GSE327449 Heterogeneity in hematopoietic stem cell enables adaptation to the aged microenvironment [scRNA-seq] 12 samples shares adaptation, rna-seq, enable
- GSE245651 BACH1 acts as a pioneer repressor to enable macrophage plasticity and adaptation across tissues and inflammatory contexts 165 samples shares plasticity, adaptation, enable
- GSE241770 ACSS2 mediates an epigenetic pathway to regulate maternal Beta-cell adaptation and progression of gestational diabetes (scRNA-Seq) 7899 samples shares adaptation, rna-seq
- GSE295250 Conserved Noncoding Cis-Elements Associated with Hibernation Modulate Metabolic and Behavioral Adaptations in Mice [RNA-seq] 72 samples shares adaptation, rna-seq
- GSE270144 Disabling leading and lagging strand histone transmission results in parental histones loss and reduced cell plasticity and viability [RNA-Seq] 60 samples shares plasticity, rna-seq
- GSE249017 AMPK is necessary for Treg functional adaptation to microenvironmental stress during malignancy and viral pneumonia 41 samples shares adaptation, treg
- GSE306262 Astrocyte glucocorticoid receptor signaling restricts neuronal plasticity [RNA-seq] 40 samples shares plasticity, rna-seq
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.