Mouse kidneys with ischemia-reperfusion injury; Human kidneys with acute kidney injury; RELA binding sites in primary human proximal tubular cells
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 31 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
- Homo sapiens (human)
- Samples
- 31 samples: 8 conditions, mostly in triplicateGroups 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
- Epigenetic reprogramming driving successful and failed repair in acute kidney injuryScience advances · 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 GSE252111_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 PRJNA1057811 and SRA study SRP480325. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 23 samples.
How we read this: 8 replicated groups read from 31 sample titles; they account for 23 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.
- GSM7993677 14day-1 14day
- GSM7993678 2day-1 2day
- GSM7993679 2day-2 2day
- GSM7993680 sham-1 sham
- GSM7993681 14day-2 14day
- GSM7993682 14day-3 14day
- GSM7993683 sham-2 sham
- GSM7993684 4hr-1 4h
- GSM7993685 4hr-2 4h
- GSM7993686 42day-1 42day
- GSM7993687 2day-3 2day
- GSM7993688 12hr-1 12h
- GSM7993689 12hr-2 12h
- GSM7993690 12hr-3 12h
- GSM7993691 4hr-3 4h
- GSM7993692 4hr-4 4h
- GSM7993693 sham-3 sham
- GSM7993694 42day-2 42day
- GSM7993695 42day-3 42day
- GSM7993696 AKI1_RNA
- GSM7993697 AKI2_RNA
- GSM7993698 AKI3_RNA
- GSM7993699 AKI4_RNA
- GSM7993700 AKI1_ATAC
- GSM7993701 AKI2_ATAC
- GSM7993702 AKI3_ATAC
- GSM7993703 AKI4_ATAC
- GSM7993720 RELA_TNF_rep1 RELA_TNF
- GSM7993721 RELA_NT_rep1 RELA_NT
- GSM7993722 RELA_TNF_rep2 RELA_TNF
- GSM7993723 RELA_NT_rep2 RELA_NT
- GSE286875 Improved spike-in normalization clarifies the relationship between active histone modifications and transcription 244 samples shares rela
- GSE267609 Tra2b's Ultraconserved Poison Exon relays TCR stimulation to shape T cell fate 63 samples shares rela
- GSE244843 Relaxin Attenuates the Genomic Actions and Biological Effects of Estrogens in the Myometrium by Reducing Estrogen Receptor Alpha Phosphorylation 56 samples shares rela
- GSE239704 NF-κB transcription factors RelA and c-Rel selectively control CD4+ T-cell function in multiple sclerosis and cancer 34 samples shares rela
- GSE226006 Histone Lactylation Antagonizes Senescence and Skeletal Muscle Aging by Modulating Aging-Related Pathways [CUT&Tag] 32 samples shares rela
- GSE249561 Histone Lactylation Antagonizes Senescence and Skeletal Muscle Aging by Modulating Aging-Related Pathways [RNA-Seq II] 20 samples shares rela
- GSE282283 YAP activation reverses aging-related visual dysfunction caused by impaired cell-matrix adhesion 15 samples shares rela
- GSE253623 Therapeutic potential of human microglial transplantation in a chimeric model of CSF1R-related leukoencephalopathy 13 samples shares rela
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.