SATB1 prevents immune cell infiltration by regulating chromatin organization and gene expression of a chemokine gene cluster in T cells
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 10 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
- 10 samples: 3 × CON vs 3 × CKO vs 2 × CON H3K27ac CUT&Tag vs 2 × CKO H3K27ac CUT&TagGroups 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
- SATB1 prevents immune cell infiltration by regulating chromatin organization and gene expression of a chemokine gene cluster in T cellsCommunications biology · 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 GSE224977_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 PRJNA933204 and SRA study SRP422606. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 10 samples.
How we read this: 4 replicated groups read from 10 sample titles; they account for 10 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.
- GSM7036433 CON-Rep1 CON
- GSM7036434 CON-Rep2 CON
- GSM7036435 CON-Rep3 CON
- GSM7036436 CKO-Rep1 CKO
- GSM7036437 CKO-Rep2 CKO
- GSM7036438 CKO-Rep3 CKO
- GSM8493711 CON H3K27ac CUT&Tag Rep1 CON H3K27ac CUT&Tag
- GSM8493712 CON H3K27ac CUT&Tag Rep2 CON H3K27ac CUT&Tag
- GSM8493713 CKO H3K27ac CUT&Tag Rep1 CKO H3K27ac CUT&Tag
- GSM8493714 CKO H3K27ac CUT&Tag Rep2 CKO H3K27ac CUT&Tag
- GSE204933 Age-associated chromatin reorganization drives overexpression of a novel Btaf1 variant regulating HSC self-renewal and MkP differentiation in male mice 82 samples shares organization, regulating, chromatin
- GSE278416 3D Chromatin organization of signal-induced specific enhancers safeguards early ESC differentiation by promoting cluster gene expression 40 samples shares organization, chromatin, cluster
- GSE276734 3D Chromatin organization of signal-induced specific enhancers safeguards early ESC differentiation by promoting cluster gene expression [RNA-seq] 21 samples shares organization, chromatin, cluster
- GSE287551 Spatial organization, chromatin accessibility and gene-regulatory programs defining sensory neurons 10 samples shares organization, chromatin
- GSE304211 H4K16ac contributes to chromatin compartment reorganization during mitotic and meiotic transitions [CUTnTAG] 128 samples shares organization, chromatin
- GSE271298 Cohesin-mediated chromatin organization controls the differentiation and function of dendritic cells 103 samples shares organization, chromatin
- GSE295997 Developmentally dynamic chromatin state at loci regulating interorgan communication 96 samples shares regulating, chromatin
- GSE214438 Age-associated chromatin re-organization in progenitor B cells 76 samples shares organization, chromatin
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.