Satb1 directs the differentiation of TH17 cells through suppression of IL-2 expression [scMultiom ATAC/RNA-seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 12 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
- 12 samples: 12 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.
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 GSE290258_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 PRJNA1226664 and SRA study SRP565605. 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 12 sample titles: 12 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.
- GSM8809385 ATAC_423_Beyer_Shakiba_1_S1
- GSM8809386 ATAC_423_Beyer_Shakiba_2_S2
- GSM8809387 ATAC_423_Beyer_Shakiba_3_S3
- GSM8809388 ATAC_423_Beyer_Shakiba_4_S1
- GSM8809389 ATAC_423_Beyer_Shakiba_5_S2
- GSM8809390 ATAC_423_Beyer_Shakiba_6_S3
- GSM8809391 WTA_423_Beyer_Shakiba_1_S1
- GSM8809392 WTA_423_Beyer_Shakiba_2_S2
- GSM8809393 WTA_423_Beyer_Shakiba_3_S3
- GSM8809394 WTA_423_Beyer_Shakiba_4_S4
- GSM8809395 WTA_423_Beyer_Shakiba_5_S5
- GSM8809396 WTA_423_Beyer_Shakiba_6_S6
- GSE296438 Transcription factor NFYA directs male meiotic entry by facilitating accessible chromatin at the promoters of genes expressed during meiosis [scRNA-seq & scATAC-seq] 10 samples shares atac, directs, rna-seq
- GSE321762 Vascular smooth muscle cell state trajectories mediate molecular mechanisms of coronary disease risk [scRNA-seq and scATAC-seq] 54 samples shares atac, rna-seq
- GSE252551 Disease-associated astrocyte epigenetic memory promotes CNS pathology [ATAC-Seq and RNA-Seq] 32 samples shares atac, rna-seq
- GSE264164 RNA-seq and ATAC-seq of follicular B cells and germinal center B cells with a conditional deletion of Brwd1 23 samples shares atac, rna-seq
- GSE312302 NMuMG PBRM1 RNA-seq, ATAC-seq, and ChIP-seq 171 samples shares atac, rna-seq
- GSE303699 Autoimmune Disease Risk Gene ANKRD55 Promotes Th17 Effector Function Through Metabolic Modulation [RNA-Seq] 60 samples shares th17, rna-seq
- GSE292377 Step-wise signal integration governs adaptive programming of lymphocytes [bulkRNA-seq and ATAC-seq] 41 samples shares atac, rna-seq
- GSE296482 A cell-intrinsic glucocorticoid biosynthesis and sensing circuit maintains homeostatic Th17 cell state [RNA-seq] 31 samples shares th17, 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.