A cell-intrinsic glucocorticoid biosynthesis and sensing circuit maintains homeostatic Th17 cell state
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 46 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
- 46 samples: 13 conditions, mostly in triplicateGroups 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.
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 GSE296502_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 PRJNA1259510 and SRA study SRP583369. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 46 samples.
How we read this: 13 replicated groups read from 46 sample titles; they account for 46 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.
- GSM8971075 Cyp11a1-WT-CNS-1 Cyp11a1-WT-CNS
- GSM8971076 Cyp11a1-WT-CNS-2 Cyp11a1-WT-CNS
- GSM8971077 Cyp11a1-WT-CNS-3 Cyp11a1-WT-CNS
- GSM8971078 Cyp11a1-WT-CNS-4 Cyp11a1-WT-CNS
- GSM8971079 Cyp11a1-KO-CNS-1 Cyp11a1-KO-CNS
- GSM8971080 Cyp11a1-KO-CNS-2 Cyp11a1-KO-CNS
- GSM8971081 Cyp11a1-KO-CNS-3 Cyp11a1-KO-CNS
- GSM8971082 Cyp11a1-KO-CNS-4 Cyp11a1-KO-CNS
- GSM8971083 Cyp11a1-KO-CNS-5 Cyp11a1-KO-CNS
- GSM8971084 Cyp11a1-KO-CNS-6 Cyp11a1-KO-CNS
- GSM8971085 GR-CNS-WT-1 GR-CNS-WT
- GSM8971086 GR-CNS-WT-2 GR-CNS-WT
- GSM8971087 GR-CNS-WT-3 GR-CNS-WT
- GSM8971088 GR-CNS-WT-4 GR-CNS-WT
- GSM8971089 GR-CNS-WT-5 GR-CNS-WT
- GSM8971090 GR-CNS-KO-1 GR-CNS-KO
- GSM8971091 GR-CNS-KO-2 GR-CNS-KO
- GSM8971092 GR-CNS-KO-3 GR-CNS-KO
- GSM8971093 GR-CNS-KO-4 GR-CNS-KO
- GSM8971094 Ctrl-2d-1 Ctrl-2d
- GSM8971095 Ctrl-2d-2 Ctrl-2d
- GSM8971096 Ctrl-2d-3 Ctrl-2d
- GSM8971097 Dex-2d-1 Dex-2d
- GSM8971098 Dex-2d-2 Dex-2d
- GSM8971099 Dex-2d-3 Dex-2d
- GSM8971100 TGF-2d-1 TGF-2d
- GSM8971101 TGF-2d-2 TGF-2d
- GSM8971102 TGF-2d-3 TGF-2d
- GSM8971103 TG+De-2d-1 TG+De-2d
- GSM8971104 TG+De-2d-2 TG+De-2d
- GSM8971105 TG+De-2d-3 TG+De-2d
- GSM8971580 Th0_48hr_1 Th0_48h
- GSM8971581 Th0_48hr_2 Th0_48h
- GSM8971582 Th0_48hr_3 Th0_48h
- GSM9541279 WT_Ctrl_1 WT_Ctrl
- GSM9541280 WT_Ctrl_2 WT_Ctrl
- GSM9541281 WT_Ctrl_3 WT_Ctrl
- GSM9541282 WT_Dex_1 WT_Dex
- GSM9541283 WT_Dex_2 WT_Dex
- GSM9541284 WT_Dex_3 WT_Dex
+ 6 more — browse all 46 samples with per-sample file links →
- GSE296482 A cell-intrinsic glucocorticoid biosynthesis and sensing circuit maintains homeostatic Th17 cell state [RNA-seq] 31 samples shares th17, cell-intrinsic, glucocorticoid, biosynthesis, homeostatic, maintains, sensing, circuit
- GSE320348 A cell-intrinsic glucocorticoid biosynthesis and sensing circuit maintains homeostatic Th17 cell state [ATAC-seq] 12 samples shares th17, cell-intrinsic, glucocorticoid, biosynthesis, homeostatic, maintains, sensing, circuit
- GSE233908 Transcription factor TCF1 binds Rorgt and orchestrates a regulatory network that determines homeostatic Th17 cell state 21 samples shares th17, homeostatic
- GSE296401 Interleukin-23 promotes a pro-inflammatory Th17 cell state by stabilizing RORγt and suppressing glucocorticoid receptor activity II 38 samples shares th17, glucocorticoid
- GSE233905 Transcription factor TCF1 binds Rorgt and orchestrates a regulatory network that determines homeostatic Th17 cell state [ATAC-seq] 13 samples shares th17, homeostatic
- GSE301763 T cell-intrinsic cGAS-CTCF regulation maintains regulatory T cell development and function 30 samples shares cell-intrinsic, maintains
- GSE298935 Mettl3 maintains genome stability of erythroid cells via Mthfd1-mediated nucleotide biosynthesis 16 samples shares biosynthesis, maintains
- GSE301663 T cell-intrinsic cGAS-CTCF regulation maintains regulatory T cell development and function [Hi-C] 8 samples shares cell-intrinsic, maintains
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.