Reversal of high-glucose-induced transcriptional and epigenetic memories through NRF2 pathway activation
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 29 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
- 29 samples: 11 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
- Reversal of high-glucose-induced transcriptional and epigenetic memories through NRF2 pathway activationLife science alliance · 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 GSE241566_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 PRJNA1008705 and SRA study SRP456799. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 29 samples.
How we read this: 11 replicated groups read from 29 sample titles; they account for 29 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.
- GSM7731051 Control_ATAC_rep1 Control_ATAC
- GSM7731052 Control_ATAC_rep2 Control_ATAC
- GSM7731053 High_glucose_ATAC_rep1 High_glucose_ATAC
- GSM7731054 High_glucose_ATAC_rep2 High_glucose_ATAC
- GSM7731055 Memory_ATAC_rep1 Memory_ATAC
- GSM7731056 Memory_ATAC_rep2 Memory_ATAC
- GSM7731057 Control_rep1 Control
- GSM7731058 Control_rep2 Control
- GSM7731059 Control_rep3 Control
- GSM7731060 High_glucose_rep1 High_glucose
- GSM7731061 High_glucose_rep2 High_glucose
- GSM7731062 High_glucose_rep3 High_glucose
- GSM7731063 Memory_rep1 Memory
- GSM7731064 Memory_rep2 Memory
- GSM7731065 Memory_rep3 Memory
- GSM7731066 HG_NRF2-OE_rep1 HG_NRF2-OE
- GSM7731067 HG_NRF2-OE_rep2 HG_NRF2-OE
- GSM7731068 HG_NRF2-OE_rep3 HG_NRF2-OE
- GSM7731069 Memory_NRF2-OE_rep1 Memory_NRF2-OE
- GSM7731070 Memory_NRF2-OE_rep2 Memory_NRF2-OE
- GSM7731071 Memory_NRF2-OE_rep3 Memory_NRF2-OE
- GSM7731072 HG_SF_rep1 HG_SF
- GSM7731073 HG_SF_rep2 HG_SF
- GSM7731074 HG_SF_rep3 HG_SF
- GSM7731075 Memory_SF_rep1 Memory_SF
- GSM7731076 Memory_SF_rep2 Memory_SF
- GSM7731077 Memory_SF_rep3 Memory_SF
- GSM8113507 Memory_SF_ATAC_rep1 Memory_SF_ATAC
- GSM8113508 Memory_SF_ATAC_rep2 Memory_SF_ATAC
- GSE309979 GeoMx GeoMx-DSP Toxic Lipid-induced Epigenetic Activation of ICAM1 in Liver Sinusoidal Endothelium Regulates Myeloid-Driven Fibro-inflammatory Response in MASH 217 samples shares epigenetic, activation
- GSE292969 Effect of CCS1477 treatment on gene expression in NRF2-activated lung cancer cells 18 samples shares nrf2
- GSE254521 Epigenetic priming promotes acquisition of TKI resistance and oncogene amplification in human lung cancer 146 samples shares epigenetic
- GSE278576 Epigenetic and 3D genome reprogramming during the aging of human hippocampus 80 samples shares epigenetic
- GSE283621 Single-cell multi-omics analysis identifies metabolism-linked epigenetic reprogramming as a driver of therapy-resistant medulloblastoma 79 samples shares epigenetic
- GSE311573 Disordered protein LAT encodes relative levels of signaling pathways in T cell activation 62 samples shares activation
- GSE324062 RAS pathway activation drives clonal selection and monocytic differentiation in FLT3 and BCL2 inhibitor resistance 61 samples shares activation
- GSE243526 Defining the Regulatory Logic of Breast Cancer Using Single-Cell Epigenetic and Transcriptome Profiling 40 samples shares epigenetic
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.