Effect of conditional deletion of Bmal1 in pancreatic β-cells in modulating transcriptional islet response to STZ-mediated pro-inflammatory injury
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: 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.
- Paper
- Core circadian transcription factor Bmal1 mediates β cell response and recovery from pro-inflammatory injuryiScience · 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 GSE278711_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 PRJNA1168494 and SRA study SRP536411. 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.
- GSM8553293 C-CB-24h-A
- GSM8553294 C-CB-24h-B
- GSM8553295 C-SZ-24h-A
- GSM8553296 C-SZ-24h-B
- GSM8553297 C-SZ-4wk-A
- GSM8553298 C-SZ-4wk-B
- GSM8553299 K-CB-24h-A
- GSM8553300 K-CB-24h-B
- GSM8553301 K-SZ-24h-A
- GSM8553302 K-SZ-24h-B
- GSM8553303 K-SZ-4wk-A
- GSM8553304 K-SZ-4wk-B
- GSE271317 Deletion of Bmal1 in Intestinal Epithelium Protects against Colonic Inflammation by Suppressing the Apoptosis Pathway 12 samples shares bmal1, deletion
- GSE255661 Effect of conditional SMC specific deletion of ADAR1 on mouse aortic single cell transcriptomic profile and effect on atherosclerosis 22 samples shares conditional, deletion
- GSE280641 Effect of conditional SMC specific deletion of ADAR1 with constitutive deletion of RNA sensor MDA5 on mouse aortic single cell transcriptomic profile and effect on atherosclerosis 12 samples shares conditional, deletion
- GSE264163 RNA-seq and ATAC-seq of follicular B cells and germinal center B cells with a conditional deletion of Brwd1 12 samples shares conditional, deletion
- GSE247373 Two transcriptionally and functionally distinct waves of pro-inflammatory versus pro-repair neutrophils during acute liver injury 12 samples shares pro-inflammatory, injury
- GSE288262 B-cell-Specific Wwox Deletion Promotes Plasmablastic Tumor Development and Pro-Inflammatory Signatures in a Myeloma Mouse Model 10 samples shares pro-inflammatory, deletion
- GSE264164 RNA-seq and ATAC-seq of follicular B cells and germinal center B cells with a conditional deletion of Brwd1 23 samples shares conditional, deletion
- GSE264161 RNA-seq and ATAC-seq of follicular B cells and germinal center B cells with a conditional deletion of Brwd1 11 samples shares conditional, deletion
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.