Regulation of the type I interferon response by chromatin organization (RNA-seq of HoxB8-FL pDC activation)
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: 3 × RNA_HoxB8_pDC_US_6h vs 3 × RNA_HoxB8_pDC_CpGA_6h vs 3 × RNA_HoxB8_pDC_US_24h vs 3 × RNA_HoxB8_pDC_CpGA_24hGroups 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
- Chromatin-mediated anticipatory control of type I interferon production in plasmacytoid dendritic cellsImmunity · 2026
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 GSE270817_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 PRJNA1128568 and SRA study SRP516219. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 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.
- GSM8352607 RNA_HoxB8_pDC_US_6h_01 RNA_HoxB8_pDC_US_6h
- GSM8352608 RNA_HoxB8_pDC_US_6h_02 RNA_HoxB8_pDC_US_6h
- GSM8352609 RNA_HoxB8_pDC_US_6h_03 RNA_HoxB8_pDC_US_6h
- GSM8352610 RNA_HoxB8_pDC_CpGA_6h_01 RNA_HoxB8_pDC_CpGA_6h
- GSM8352611 RNA_HoxB8_pDC_CpGA_6h_02 RNA_HoxB8_pDC_CpGA_6h
- GSM8352612 RNA_HoxB8_pDC_CpGA_6h_03 RNA_HoxB8_pDC_CpGA_6h
- GSM8352613 RNA_HoxB8_pDC_US_24h_01 RNA_HoxB8_pDC_US_24h
- GSM8352614 RNA_HoxB8_pDC_US_24h_02 RNA_HoxB8_pDC_US_24h
- GSM8352615 RNA_HoxB8_pDC_US_24h_03 RNA_HoxB8_pDC_US_24h
- GSM8352616 RNA_HoxB8_pDC_CpGA_24h_01 RNA_HoxB8_pDC_CpGA_24h
- GSM8352617 RNA_HoxB8_pDC_CpGA_24h_02 RNA_HoxB8_pDC_CpGA_24h
- GSM8352618 RNA_HoxB8_pDC_CpGA_24h_03 RNA_HoxB8_pDC_CpGA_24h
- GSE268876 Spatially clustered type I interferon responses at injury borderzones [scRNA-Seq] 12 samples shares interferon, rna-seq, type
- GSE292285 Depletion of lamin-associated polypeptide 2 alpha leads to chromatin reorganization and redistribution of A-type lamins to open genomic regions [ChIP-seq] 22 samples shares organization, chromatin, type
- GSE243942 Spatio-temporal X-linked gene reactivation in the mouse germline reveals site-specific retention of epigenetic silencing [RNA-seq] 125 samples shares activation, rna-seq
- GSE296993 H3K9 di-methylation dynamics underlies mouse minor zygotic genome activation [RNA-seq of mESC] 50 samples shares activation, rna-seq
- GSE302070 Heterogeneity and Homogeneity in Treg responses to Interleukin-2 [RNAseq2: Differential activation of Immune cell types by IL2-Immunocytokines] 45 samples shares activation, type
- GSE281467 Coactivation of innate immune suppressive cells induces acquired resistance against cancer immunotherapy targeting the innate immune system [TIICs RNA-seq] 30 samples shares activation, rna-seq
- GSE218634 Autoantibody-induced arthritis pain caused by a sustained type I interferon signaling 26 samples shares interferon, type
- GSE245648 The Heme-regulated transcriptional repressor, BACH1 safeguards macrophage enhancer selection, activation andtissue adaptation [RNA-seq_BMDM] 24 samples shares activation, 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.