Enhancer infestation drives tumorigenic activation of inactive compartment in Epstein-Barr virus-positive nasopharyngeal carcinoma [ChIP-Seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 12 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
- 12 samples: 2 × NP69T_H3K4me vs 2 × C666-1_H3K4me vs 2 × NPC-TW01_H3K4me vs 2 × NPC-TW01-EBV-eGFP_H3K4meGroups 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
- Enhancer infestation drives tumorigenic activation of inactive B compartment in Epstein-Barr virus-positive nasopharyngeal carcinomaEBioMedicine · 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 GSE225248_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 PRJNA934676 and SRA study SRP422375. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 8 samples.
How we read this: 4 replicated groups read from 12 sample titles; they account for 8 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.
- GSM7042514 NP69T_H3K4me1 NP69T_H3K4me
- GSM7042515 NP69T_H3K4me3 NP69T_H3K4me
- GSM7042516 NP69T_H3K27ac
- GSM7042517 C666-1_H3K4me1 C666-1_H3K4me
- GSM7042518 C666-1_H3K4me3 C666-1_H3K4me
- GSM7042519 C666-1_H3K27ac
- GSM7042520 NPC-TW01_H3K4me1 NPC-TW01_H3K4me
- GSM7042521 NPC-TW01_H3K4me3 NPC-TW01_H3K4me
- GSM7042522 NPC-TW01_H3K27ac
- GSM7042523 NPC-TW01-EBV-eGFP_H3K4me1 NPC-TW01-EBV-eGFP_H3K4me
- GSM7042524 NPC-TW01-EBV-eGFP_H3K4me3 NPC-TW01-EBV-eGFP_H3K4me
- GSM7042525 NPC-TW01-EBV-eGFP_H3K27ac
- GSE225251 Enhancer infestation drives tumorigenic activation of inactive compartment in Epstein-Barr virus-positive nasopharyngeal carcinoma 26 samples shares virus-positive, nasopharyngeal, epstein-barr, infestation, tumorigenic, compartment, activation, enhancer
- GSE225250 Enhancer infestation drives tumorigenic activation of inactive compartment in Epstein-Barr virus-positive nasopharyngeal carcinoma [RNA-Seq] 6 samples shares virus-positive, nasopharyngeal, epstein-barr, infestation, tumorigenic, compartment, activation, enhancer
- GSE231689 Bulk-RNA and single-cell RNA sequencing of Nasopharyngeal Carcinoma Cell lines infected with Epstein-Barr virus (EBV) subjected to air-liquid interface (ALI)-induced reactivation 10 samples shares nasopharyngeal, epstein-barr, activation
- GSE231687 Bulk-RNA Sequencing of Nasopharyngeal Carcinoma Cell Lines infected with Epstein-Barr virus (EBV) subjected to air-liquid interface (ALI)-induced reactivation 6 samples shares nasopharyngeal, epstein-barr, activation
- GSE231688 Single cell RNA sequencing of Nasopharyngeal Carcinoma Cell lines infected with Epstein-Barr virus (EBV) subjected to air-liquid interface (ALI)-induced reactivation 4 samples shares nasopharyngeal, epstein-barr, activation
- GSE214023 Enhancer remodeling activates Notch signaling to confer chemoresistance in advanced nasopharyngeal carcinoma [ChIP-Seq] 6 samples shares nasopharyngeal, enhancer
- GSE284859 The Histone Demethylase LSD1/ZNF217/CoREST Complex is a Major Restriction Factor of Epstein-Barr Virus Lytic Reactivation 6 samples shares epstein-barr, activation
- GSE263067 DDX5 super-enhancer promote vasculogenic mimicry formation and metastasis in nasopharyngeal carcinoma by enhancing ADAM10 transcription 2 samples shares nasopharyngeal, enhancer
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.