Nuclear Acly protects liver from ischemia-reperfusion injury
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 27 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
- 27 samples: 4 × Wtshamrna vs 4 × WTIRrna vs 4 × Koshamrna vs 4 × KOIRrnaGroups 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
- Nuclear Acly protects the liver from ischemia-reperfusion injuryHepatology (Baltimore, Md.) · 2024
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 GSE246406_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 PRJNA1032885 and SRA study SRP468885. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 16 samples.
How we read this: 4 replicated groups read from 27 sample titles; they account for 16 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.
- GSM7868393 WT_normoxia_H3K27ac_cut&run
- GSM7868394 WT_normoxia_H3K9ac_cut&run
- GSM7868395 WT_normoxia_Acly_cut&run
- GSM7868396 WT_normoxia_IgG_cut&run
- GSM7868397 WT_HR_H3K27ac_cut&run
- GSM7868398 WT_HR_H3K9ac_cut&run
- GSM7868399 WT_HR_Acly_cut&run
- GSM7868400 WT_HR_IgG_cut&run
- GSM7868401 KO_HR_H3K27ac_cut&run
- GSM7868402 KO_HR_H3K9ac_cut&run
- GSM7868403 KO_HR_IgG_cut&run
- GSM7868404 Wtshamrna_1 Wtshamrna
- GSM7868405 Wtshamrna_2 Wtshamrna
- GSM7868406 Wtshamrna_3 Wtshamrna
- GSM7868407 Wtshamrna_4 Wtshamrna
- GSM7868408 WTIRrna_1 WTIRrna
- GSM7868409 WTIRrna_2 WTIRrna
- GSM7868410 WTIRrna_3 WTIRrna
- GSM7868411 WTIRrna_4 WTIRrna
- GSM7868412 Koshamrna_1 Koshamrna
- GSM7868413 Koshamrna_2 Koshamrna
- GSM7868414 Koshamrna_3 Koshamrna
- GSM7868415 Koshamrna_4 Koshamrna
- GSM7868416 KOIRrna_1 KOIRrna
- GSM7868417 KOIRrna_2 KOIRrna
- GSM7868418 KOIRrna_3 KOIRrna
- GSM7868419 KOIRrna_4 KOIRrna
- GSE279693 Transcriptional analysis on ischemia-reperfusion injury of mouse normal or steatotic livers 12 samples shares ischemia-reperfusion, injury, liver
- GSE267650 Mouse kidney ischemia-reperfusion injury time course 57 samples shares ischemia-reperfusion, injury
- GSE292193 RNA-Seq Reveals Enhanced Inflammation and Fibrosis in Alcohol-Induced Liver Injury of Apoe Knockout Mice 18 samples shares injury, liver
- GSE298751 Prussian blue nanoparticles targeting multiple PANoptosome-mediated PANoptosis for myocardial ischemia-reperfusion injury therapy 15 samples shares ischemia-reperfusion, injury
- GSE274819 Single-cell RNA sequencing of murine kidneys for ischemia-reperfusion induced renal injury and fibrosis 10 samples shares ischemia-reperfusion, injury
- GSE274969 Genetic variation in the activity of a TREM2-p53 signaling axis determines oxygeninduced lung injury 77 samples shares injury
- GSE267452 Loss of Nuclear Receptor Nr4a3 Alleviates Cellular Senescence to Promote Adult Direct Cardiac Reprogramming 54 samples shares nuclear
- GSE222656 RNA-seq and Cut & Tag analyses of mouse 2-cell embryos in which lamin B1 dissociation from the nuclear envelope is inhibited 40 samples shares nuclear
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.