Impact of Hypoxia on Epstein-Barr Virus–Mediated B Cell Transformation
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 18 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
- 18 samples: 18 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
- Epstein-Barr Virus-Driven B-Cell Transformation under Germinal Center Hypoxia Requires External Unsaturated Fatty AcidsResearch square · 2025
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 GSE293238_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 PRJNA1243405 and SRA study SRP573914. 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 18 sample titles: 18 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.
- GSM8879092 LCL transformed under 21% O2 by EBV, replicate 1, INPUT
- GSM8879093 LCL transformed under 21% O2 by EBV, replicate 2, INPUT
- GSM8879094 LCL transformed under 21% O2 by EBV, replicate 1, H3K4me3, ChIP
- GSM8879095 LCL transformed under 21% O2 by EBV, replicate 2, H3K4me3, ChIP
- GSM8879096 LCL transformed under 21% O2 by EBV, replicate 1, H3K27ac, ChIP
- GSM8879097 LCL transformed under 21% O2 by EBV, replicate 2, H3K27ac, ChIP
- GSM8879098 LCL transformed under 1% O2 by EBV, replicate 1, INPUT
- GSM8879099 LCL transformed under 1% O2 by EBV, replicate 2, INPUT
- GSM8879100 LCL transformed under 1% O2 by EBV, replicate 1, H3K4me3, ChIP
- GSM8879101 LCL transformed under 1% O2 by EBV, replicate 2, H3K4me3, ChIP
- GSM8879102 LCL transformed under 1% O2 by EBV, replicate 1, H3K27AC, ChIP
- GSM8879103 LCL transformed under 1% O2 by EBV, replicate 2, H3K27AC, ChIP
- GSM8879104 LCL transformed under 21% O2 by EBV, replicate 1, RNA-seq
- GSM8879105 LCL transformed under 21% O2 by EBV, replicate 2, RNA-seq
- GSM8879106 LCL transformed under 21% O2 by EBV, replicate 3, RNA-seq
- GSM8879107 LCL transformed under 1% O2 by EBV, replicate 1, RNA-seq
- GSM8879108 LCL transformed under 1% O2 by EBV, replicate 2 RNA-seq
- GSM8879109 LCL transformed under 1% O2 by EBV, replicate 3, RNA-seq
- GSE303478 Systematic investigation reveals extensive Epstein-Barr virus transcriptional regulation of the human genome 217 samples shares epstein-barr, virus
- GSE317492 A tonsil organoid model reveals Epstein-Barr virus infected germinal center B cell states during primary infection 26 samples shares epstein-barr, virus
- GSE281522 Landscape of the Epstein-Barr virus-host chromatin interactome and gene regulation 41 samples shares epstein-barr, virus
- GSE303331 Systematic investigation reveals extensive Epstein-Barr virus transcriptional regulation of the human genome [ChIP-seq] 38 samples shares epstein-barr, virus
- GSE225251 Enhancer infestation drives tumorigenic activation of inactive compartment in Epstein-Barr virus-positive nasopharyngeal carcinoma 26 samples shares epstein-barr, virus
- GSE261321 NF-κB- and TET2-mediated macrophage reprogramming overrides the anti-inflammatory effects of hypoxia and improves responses in human cancer ChIP-Seq). 24 samples shares mediated, hypoxia
- GSE261322 NF-κB- and TET2-mediated macrophage reprogramming overrides the anti-inflammatory effects of hypoxia and improves responses in human cancer (RNA-Seq I). 20 samples shares mediated, hypoxia
- GSE327944 Effects of adenovirus mediated GLA expression on gene expression of hiPSC-derived ventricular cardiomyocytes from control and Fabri Disease Lines 12 samples shares mediated, virus
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.