Chronic viral mimicry induction following p53 loss promotes immune evasion
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 49 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
- 49 samples: 14 conditions, mostly in duplicateGroups 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.
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 GSE216947_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 PRJNA896220 and SRA study SRP404712. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 8 samples read as cases, 8 as controls.
How we read this: 14 replicated groups read from 49 sample titles; they account for 32 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.
- GSM6685089 RNA-seq,Trp53_KO,Rep1 RNA-seq,Trp53_KO,
- GSM6685090 RNA-seq,Trp53_KO,Rep2 RNA-seq,Trp53_KO,
- GSM6685091 RNA-seq,Trp53_KO,Rep3 RNA-seq,Trp53_KO,
- GSM6685092 RNA-seq,Trp53_WT,Rep1 RNA-seq,Trp53_WT,
- GSM6685093 RNA-seq,Trp53_WT,Rep2 RNA-seq,Trp53_WT,
- GSM6685094 RNA-seq,Trp53_WT,Rep3 RNA-seq,Trp53_WT,
- GSM6685105 CUT&RUN, IgG_CST
- GSM6685106 CUT&RUN, p53,Trp53_KO,Rep1 CUT&RUN, p53,Trp53_KO,
- GSM6685107 CUT&RUN, p53,Trp53_KO,Rep2 CUT&RUN, p53,Trp53_KO,
- GSM6685108 CUT&RUN, p53,Trp53_WT,Rep1 CUT&RUN, p53,Trp53_WT,
- GSM6685109 CUT&RUN, p53,Trp53_WT,Rep2 CUT&RUN, p53,Trp53_WT,
- GSM6685110 CUT&RUN, H3K27ac,Trp53_KO,Rep1 CUT&RUN, H3K27ac,Trp53_…
- GSM6685111 CUT&RUN, H3K27ac,Trp53_KO,Rep2 CUT&RUN, H3K27ac,Trp53_…
- GSM6685112 CUT&RUN, H3K27ac,Trp53_WT,Rep1 CUT&RUN, H3K27ac,Trp53_…
- GSM6685113 CUT&RUN, H3K27ac,Trp53_WT,Rep2 CUT&RUN, H3K27ac,Trp53_…
- GSM6685114 CUT&RUN, H3K27me3,Trp53_KO,Rep1 CUT&RUN, H3K27me3,Trp53…
- GSM6685115 CUT&RUN, H3K27me3,Trp53_KO,Rep2 CUT&RUN, H3K27me3,Trp53…
- GSM6685116 CUT&RUN, H3K27me3,Trp53_WT,Rep1 CUT&RUN, H3K27me3,Trp53…
- GSM6685117 CUT&RUN, H3K27me3,Trp53_WT,Rep2 CUT&RUN, H3K27me3,Trp53…
- GSM6685118 CUT&RUN, H3K9me3,Trp53_KO,Rep1 CUT&RUN, H3K9me3,Trp53_…
- GSM6685119 CUT&RUN, H3K9me3,Trp53_KO,Rep2 CUT&RUN, H3K9me3,Trp53_…
- GSM6685120 CUT&RUN, H3K9me3,Trp53_WT,Rep1 CUT&RUN, H3K9me3,Trp53_…
- GSM6685121 CUT&RUN, H3K9me3,Trp53_WT,Rep2 CUT&RUN, H3K9me3,Trp53_…
- GSM6700930 scRNASeq,Trp53_KO,Rep1 scRNASeq,Trp53_KO,
- GSM6700931 scRNASeq,Trp53_KO,Rep2 scRNASeq,Trp53_KO,
- GSM6700932 scRNASeq,Trp53_KO,Rep3 scRNASeq,Trp53_KO,
- GSM6700933 scRNASeq,Trp53_WT,Rep1 scRNASeq,Trp53_WT,
- GSM6700934 scRNASeq,Trp53_WT,Rep2 scRNASeq,Trp53_WT,
- GSM6700935 scRNASeq,Trp53_WT,Rep3 scRNASeq,Trp53_WT,
- GSM6700952 STIC,P01,Lesion
- GSM6700953 STIC,P01,Normal
- GSM6700954 STIC,P02,Lesion
- GSM6700955 STIC,P02,Normal
- GSM6700956 STIC,P04,Lesion
- GSM6700957 STIC,P04,Normal
- GSM7881526 CUT&RUN, H3K4me3,Trp53_KO,Rep1 CUT&RUN, H3K4me3,Trp53_…
- GSM7881527 CUT&RUN, H3K4me3,Trp53_KO,Rep2 CUT&RUN, H3K4me3,Trp53_…
- GSM7881528 CUT&RUN, H3K4me3,Trp53_WT,Rep1 CUT&RUN, H3K4me3,Trp53_…
- GSM7881529 CUT&RUN, H3K4me3,Trp53_WT,Rep2 CUT&RUN, H3K4me3,Trp53_…
- GSM7881530 STIC,P07,Lesion
+ 9 more — browse all 49 samples with per-sample file links →
- GSE243020 The loss of an orphan nuclear receptor NR2E3 augments Wnt/β-Catenin signaling via epigenetic dysregulation that promotes the Sp1-β catenin-p300 interactions in hepatocellular carcinoma. 8 samples shares promotes, loss
- GSE281956 Oxidation Resistance 1 (Oxr1) Dysregulation Promotes TKI Resistance and Blast Crisis in Chronic Myeloid Leukemia. 59 samples shares promotes, chronic
- GSE290037 Loss of IL13RA2 promotes metastatic tumour growth in triple-negative breast cancer via increased AKT signalling 21 samples shares promotes, loss
- GSE260551 Trabectedin Promotes Oncolytic Virus Antitumor Efficacy, Viral Gene Expression, and Immune Effector Function in Models of Bone Sarcoma 12 samples shares promotes, viral
- GSE242098 Med12 ablation promotes anti-tumor function by enhancing tumor intrinsic immunogenicity in Pancreatic ductal adenocarcinoma 114 samples shares promotes
- GSE287355 An EZH2—SREBP2 axis promotes cholesterol biosynthesis and represents a noncanonical vulnerability in tumorigenesis 79 samples shares promotes
- GSE291730 KLF4 promotes a KRT13+ hillock-like state in squamous lung cancer 55 samples shares promotes
- GSE250614 Suppression of ERK signalling promotes pluripotent epiblast in the human blastocyst 225 samples shares promotes
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.