GEO series

RSAD2/VIPERIN and CMPK2 Coordinate an Immunometabolic Response to Epstein-Barr Virus

GSE319301 Homo sapiens (human) RNA-seq (gene expression) 18 samples Submitted 2026/06/01 Platform GPL30173

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: 6 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)

Epstein-Barr Virus (EBV) infection and reactivation in B-lymphocytes is tightly regulated by host antiviral response genes. In the present study, we identify interferon stimulated genes RSAD2 (radical S-adenosyl methionine domain-containing 2) and CMPK2 (Cytidine/Uridine Monophosphate Kinase 2) as key modulators of EBV expression and cellular response during EBV infection and reactivation.

Read the full summary ↓

EBV primary infection and reactivation lead to a coordinated upregulation of RSAD2 and CMPK2. Depletion of RSAD2 reduced cell viability and limited EBV reactivation, while depletion of CMPK2 led to reactivation of EBV lytic gene expression during latency. Transcriptomic analysis revealed that RSAD2 and CMPK2 have overlapping functions in regulating IFN-signaling pathways, as well as oxidative phosphorylation, protein translation, and unfolded protein response during reactivation. Despite distinct subcellular localizations, RSAD2 at the Endoplasmic Reticulum (ER), and CMPK2 in mitochondria, both genes converge on shared immunometabolic pathways, including control of Gasdermin D (GSDMD) associated pyroptosis and ATF-4 associated unfolded protein response (UPR). EBV reactivation induced formation of antiviral ribonucleotide ddhCTP during lytic EBV reactivation which was strictly dependent on RSAD2. Knockdown of RSAD2 and CMPK2 had significant effects on global metabolites consistent with a remodeling of glycolysis, fatty acid biosynthesis and degradation of superoxides. These observations demonstrate that RSAD2-CMPK2 function in a coordinated ER-mitochondria stress-Interferon signaling axis that shapes EBV reactivation and host immune control, including a novel layer of immunometabolic regulation modulating viral latency and reactivation.

This dataset

Open GSE319301 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 GSE319301_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 PRJNA1422798 and SRA study SRP676588. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Study design

6 conditions, mostly in triplicate

shControl, Uninduced, ×3 shRSAD2, Uninduced, ×3 shCMPK2, Uninduced, ×3 shControl, Induced, ×3 shRSAD2, Induced, ×3 shCMPK2, Induced, ×3

Supports a between-group comparison across 18 samples.

How we read this: 6 replicated groups read from 18 sample titles; they account for 18 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

GSM9515041 shControl, Uninduced, Replicate 1 shControl, Uninduced,
GSM9515042 shControl, Uninduced, Replicate 2 shControl, Uninduced,
GSM9515043 shControl, Uninduced, Replicate 3 shControl, Uninduced,
GSM9515044 shRSAD2, Uninduced, Replicate 1 shRSAD2, Uninduced,
GSM9515045 shRSAD2, Uninduced, Replicate 2 shRSAD2, Uninduced,
GSM9515046 shRSAD2, Uninduced, Replicate 3 shRSAD2, Uninduced,
GSM9515047 shCMPK2, Uninduced, Replicate 1 shCMPK2, Uninduced,
GSM9515048 shCMPK2, Uninduced, Replicate 2 shCMPK2, Uninduced,
GSM9515049 shCMPK2, Uninduced, Replicate 3 shCMPK2, Uninduced,
GSM9515050 shControl, Induced, Replicate 1 shControl, Induced,
GSM9515051 shControl, Induced, Replicate 2 shControl, Induced,
GSM9515052 shControl, Induced, Replicate 3 shControl, Induced,
GSM9515053 shRSAD2, Induced, Replicate 1 shRSAD2, Induced,
GSM9515054 shRSAD2, Induced, Replicate 2 shRSAD2, Induced,
GSM9515055 shRSAD2, Induced, Replicate 3 shRSAD2, Induced,
GSM9515056 shCMPK2, Induced, Replicate 1 shCMPK2, Induced,
GSM9515057 shCMPK2, Induced, Replicate 2 shCMPK2, Induced,
GSM9515058 shCMPK2, Induced, Replicate 3 shCMPK2, Induced,

Datasets on a similar topic

GSE275935 HIV-induced RSAD2/Viperin supports sustained infection of monocyte-derived macrophages 21 samples shares viperin, rsad2
GSE253073 HIV Induces RSAD2/Viperin To Promote Sustained Infection of Monocyte-Derived Macrophages 9 samples shares viperin, rsad2
GSE335001 Human iPSC-Based Alveolus-on-Chip Reveals Immunometabolic Regulation of Influenza A Virus Infection by Butyrate 6 samples shares immunometabolic, virus
GSE331078 CMPK2 restricts Mycobacterium tuberculosis replication and regulates macrophage gene expression 18 samples shares cmpk2
GSE298663 Immunometabolic determinants of long-term response in leukemia patients receiving CD19 CAR T cell therapy 12 samples shares immunometabolic
GSE309967 Immunometabolic Endotypes Define Distinct Clinical Trajectories in Type 2 Diabetes 48 samples shares immunometabolic
GSE309941 Immunometabolic Endotypes Define Distinct Clinical Trajectories in Type 2 Diabetes [bulk RNA-seq] 42 samples shares immunometabolic
GSE289672 Single-Cell Transcriptomics Reveal Distinct Biological and Immunometabolic Landscapes in Renal Medullary Carcinoma Compared to Clear Cell Renal Cell Carcinoma 10 samples shares immunometabolic

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.