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PATZ1 Condensation Adjacent to PML Nuclear Bodies Suppresses HBoV Transcription as an Intrinsic Antiviral Defense

GSE317875 Homo sapiens (human) RNA-seq (gene expression) 21 samples Submitted 2026/03/28 Platform GPL29480
At a glance

RNA-seq (gene expression) · human · 21 samples

What it is
RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
Organism
Homo sapiens (human)
Samples
21 samples: 7 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.
Summary (written by the submitters)
PML nuclear bodies (PML NBs) are membraneless nuclear compartments that contribute to intrinsic immune defenses against DNA viruses. Here, we identify the host transcription factor PATZ1 as a novel antiviral effector that forms condensates adjacent to PML NBs to suppress human bocavirus 1 (HBoV1) transcription. The viral protein NS1-70, which is essential for HBoV1 DNA replication, triggers the phase separation of PATZ1 into condensates near PML NBs.
Read the full summary ↓
These condensates act as an intrinsic antiviral defense by recruiting PATZ1 to G-rich regions of the viral genome, thereby repressing viral RNA transcription. To counter this restriction, the alternatively spliced viral protein NS2 interacts with PATZ1, disrupting both PATZ1 condensate formation and its association with the viral genome. Furthermore, PATZ1 also binds G-rich motifs within host gene loci, and NS2-mediated disruption of PATZ1 condensates similarly alleviates transcriptional repression of host genes, thereby facilitating viral replication. Beyond HBoV1, PATZ1 also restricts additional DNA viruses including minute virus of canines (MVC), human parvovirus B19, hepatitis B virus (HBV) and human papillomavirus (HPV), highlighting a conserved antiviral role. Collectively, our findings reveal an unrecognized intrinsic antiviral mechanism involving PATZ1–PML NBs interactions and identify NS2 as a viral antagonist that reprograms host transcription to promote productive infection.
This dataset
Open GSE317875 in finder → Find more human RNA-seq datasets →
Download · which file do I need?

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.

1 · Just have a look

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.

Series matrix ↓
2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE317875_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓
3 · Start from the raw reads

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.

Raw reads on ENA ↗

What the files usually look like: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.

Also filed as BioProject PRJNA1415748 and SRA study SRP668974. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
7 conditions, mostly in triplicate
Mock ×3 WT ×3 NS1mt ×3 NS1mt_NS1 ×3 NS1mt_NS2 ×3 NS1mt_NS1_70 ×3 NS1mt_Vector ×3

Supports a between-group comparison across 21 samples.

How we read this: 7 replicated groups read from 21 sample titles; they account for 21 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.

Samples in this study
Datasets on a similar topic

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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.