GEO series

Transcriptomic profiling of Carfilzomib (CFZ) treatment in HSV-1 infected BV2 microglial cells

GSE328236 Mus musculus (mouse) RNA-seq (gene expression) 12 samples Submitted 2026/04/21 Platform GPL17021

At a glance

RNA-seq (gene expression) · mouse · 12 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: Mus musculus (mouse)
Samples: 12 samples: 3 × BV2 cells infected with HSV-1 (MOI=1) for 24 hours and treated with 30 nM CFZ, vs 3 × Uninfected BV2 cells treated with 30 nM CFZ, vs 3 × BV2 cells infected with HSV-1 (MOI=1) for 24 hours and treated with DMSO,Groups 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)

This study investigates the molecular mechanisms underlying the interaction between Carfilzomib (CFZ) and Herpes Simplex Virus type 1 (HSV-1) infection in microglial cells. Using the BV2 microglial cell line, we performed RNA sequencing to dissect the transcriptional responses under different conditions. Cells were either infected with HSV-1 (MOI=1) for 24 hours or left uninfected, and subsequently treated with 30 nM Carfilzomib (CFZ) or the vehicle control (DMSO) 6 hours post infection.

This dataset

Open GSE328236 in finder → Find more mouse 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 GSE328236_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 PRJNA1450046 and SRA study SRP690545. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Study design

3 × BV2 cells infected with HSV-1 (MOI=1) for 24 hours and treated with 30 nM CFZ, vs 3 × Uninfected BV2 cells treated with 30 nM CFZ, vs 3 × BV2 cells infected with HSV-1 (MOI=1) for 24 hours and treated with DMSO,

Supports a between-group comparison across 9 samples.

How we read this: 3 replicated groups read from 12 sample titles; they account for 9 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

GSM9675635 BV2 cells infected with HSV-1 (MOI=1) for 24 hours and treated with 30 nM CFZ, rep1 BV2 cells infected with…
GSM9675636 BV2 cells infected with HSV-1 (MOI=1) for 24 hours and treated with 30 nM CFZ, rep2 BV2 cells infected with…
GSM9675637 BV2 cells infected with HSV-1 (MOI=1) for 24 hours and treated with 30 nM CFZ, rep3 BV2 cells infected with…
GSM9675638 Uninfected BV2 cells treated with 30 nM CFZ, rep1 Uninfected BV2 cells tr…
GSM9675639 Uninfected BV2 cells treated with 30 nM CFZ, rep2 Uninfected BV2 cells tr…
GSM9675640 Uninfected BV2 cells treated with 30 nM CFZ, rep3 Uninfected BV2 cells tr…
GSM9675641 BV2 cells infected with HSV-1 (MOI=1) for 24 hours and treated with DMSO, rep1 BV2 cells infected with…
GSM9675642 BV2 cells infected with HSV-1 (MOI=1) for 24 hours and treated with DMSO, rep2 BV2 cells infected with…
GSM9675643 BV2 cells infected with HSV-1 (MOI=1) for 24 hours and treated with DMSO, rep3 BV2 cells infected with…
GSM9675644 Uninfected BV2 cells treated with DMSO, rep1.
GSM9675645 Uninfected BV2 cells treated with DMSO, rep2.
GSM9675646 Uninfected BV2 cells treated with DMSO, rep3.

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