Tracing functional (epi)genomic imprints and their evolutionary origins in human defense antiviral cellular response (ChIP-seq III)
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 14 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
- 14 samples: 14 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
- An evolutionarily conserved constellation of functional cis-elements programs the virus-responsive fate of the human (epi)genomeNucleic acids research · 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 GSE288595_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 PRJNA1218652 and SRA study SRP561231. 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 14 sample titles: 14 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.
- GSM8770452 H3K27ac-ChIP-seq_A549_SVI_0h_2025
- GSM8770453 H3K27ac-ChIP-seq_A549_SVI_6h_2025
- GSM8770454 H3K27ac-ChIP-seq_NIH3T3_SVI_0h_2025
- GSM8770455 H3K27ac-ChIP-seq_NIH3T3_SVI_6h_2025
- GSM8770456 H3K27ac-ChIP-seq_THP-1_SVI_0h_2025
- GSM8770457 H3K27ac-ChIP-seq_THP-1_SVI_6h_2025
- GSM8770458 IRF3-ChIP-seq_A549_SVI_0h_2025
- GSM8770459 IRF3-ChIP-seq_A549_SVI_6h_2025
- GSM8770460 Input-ChIP-seq_A549_SVI_0h_2025
- GSM8770461 Input-ChIP-seq_A549_SVI_6h_2025
- GSM8770462 Input-ChIP-seq_NIH3T3_SVI_0h_2025
- GSM8770463 Input-ChIP-seq_NIH3T3_SVI_6h_2025
- GSM8770464 Input-ChIP-seq_THP-1_SVI_0h_2025
- GSM8770465 Input-ChIP-seq_THP-1_SVI_6h_2025
- GSE229439 Tracing functional (epi)genomic imprints and their evolutionary origins in human defense antiviral cellular response (ChIP-Seq) 85 samples shares evolutionary, antiviral, imprints, cellular, chip-seq, tracing, origins
- GSE253111 Tracing functional (epi)genomic imprints and their evolutionary origins in human defense antiviral cellular response (RNA-Seq 2) 10 samples shares evolutionary, antiviral, imprints, cellular, tracing, origins
- GSE320006 Identification of species differences in structure and function of COMMD3-BMI1 loci in neural stem cells III 6 samples shares iii
- GSE293066 MAVS Orchestrates a Potent IFN-independent Antiviral Immunity by 2 Preserving Mitochondrial Integrity 54 samples shares antiviral
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.