← BioTransfer GEO Dataset Finder
GEO series

West Nile virus and Zika virus infections induce aggresome formation in human neural progenitor and A549 cells

GSE310262 Homo sapiens (human) RNA-seq (gene expression) 18 samples Submitted 2026/03/30 Platform GPL24676
At a glance

RNA-seq (gene expression) · human · 18 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
18 samples
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
West Nile virus and Zika virus infections induce aggresome formation in human neural progenitor and A549 cellsJournal of virology · 2026
Summary (written by the submitters)
ZIKA viral replication vesicles (VRVs) were previously observed to cluster asymmetrically on one side of the nucleus in infected Huh7, A549 and human neural progenitor cells (h-NPCs). West Nile virus (WNV) infections in these cells also induce asymmetrically clustered VRVs. The sequential cell responses leading to asymmetric clustering of the WNV and ZIKV VRVs were investigated.
Read the full summary ↓
Both infections activated the cellular unfolded protein response (UPR) as indicated by increased expression of HSPA5 (GRP78), the master regulator of endoplasmic reticular stress, and activation of the PERK branch of the UPR (p-PERK–p-eIF2α–GADD34). Increased microtubule (MT) acetylation was also detected. As the infection progressed, the level of ubiquitinated proteins increased and GRP78, HDAC6, ubiquitinated proteins and VRVs clustered at the cellular microtubule organizing center (MTOC) and became surrounded by a vimentin “cage.” The components involved in the formation of asymmetric virus replication complexes are characteristic of aggresome formation, an additional cellular response that copes with excessive misfolded proteins when the UPR is overwhelmed. During aggresome formation, HDAC6 links polyubiquitinated proteins to the dynein motor complex for transport along MTs to the MTOC where they aggregate and are surrounded by a vimentin cage. HDAC6 knockdown prevented the asymmetric clustering of the viral replication complexes and resulted in activation of the p-PERK–p-eIF2α–CHOP apoptotic pathway. The threshold for triggering aggresome formation varied with the infecting orthoflavivirus and cell type. The formation of aggresome-like, asymmetric VRVs in A549 cells and h-NPCs infected with WNV or ZIKV prolonged cell survival and increased the viral yield.
Published in
West Nile virus and Zika virus infections induce aggresome formation in human neural progenitor and A549 cells
Basu M, Espínola EE, Niu W et al. · Journal of virology 2026 · PMID 42112956 · doi:10.1128/jvi.02080-25
This dataset
Open GSE310262 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 GSE310262_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 PRJNA1365665 and SRA study SRP645786. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 42112956) ↗
Samples in this study

The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.

+ 18 more — browse all 18 samples with per-sample file links →

Datasets on a similar topic

Search all human RNA-seq datasets in GEO →

Share this dataset

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.