Temporal RNA-seq analysis of host transcriptional remodeling during lytic murine gammaherpesvirus 68 (MHV-68) infection
RNA-seq (gene expression) · mouse · 24 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
- 24 samples: 24 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
- Targeting Host Metabolic and Epigenetic Rewiring Blocks Lytic Gammaherpesvirus ProductionViruses · 2026
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 GSE314414_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: 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 PRJNA1390887 and SRA study SRP656569. 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 24 sample titles: 24 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.
- GSM9396007 NIH3T3 cells, mock, 4hpi, batch A
- GSM9396008 NIH3T3 cells, mock, 4hpi, batch B
- GSM9396009 NIH3T3 cells, mock, 4hpi, batch C
- GSM9396010 NIH3T3 cells, mock, 8hpi, batch A
- GSM9396011 NIH3T3 cells, mock, 8hpi, batch B
- GSM9396012 NIH3T3 cells, mock, 8hpi, batch C
- GSM9396013 NIH3T3 cells, mock, 12hpi, batch A
- GSM9396014 NIH3T3 cells, mock, 12hpi, batch B
- GSM9396015 NIH3T3 cells, mock, 12hpi, batch C
- GSM9396016 NIH3T3 cells, mock, 24hpi, batch A
- GSM9396017 NIH3T3 cells, mock, 24hpi, batch B
- GSM9396018 NIH3T3 cells, mock, 24hpi, batch C
- GSM9396019 NIH3T3 cells, MHV-68, 4hpi, batch A
- GSM9396020 NIH3T3 cells, MHV-68, 4hpi, batch B
- GSM9396021 NIH3T3 cells, MHV-68, 4hpi, batch C
- GSM9396022 NIH3T3 cells, MHV-68, 8hpi, batch A
- GSM9396023 NIH3T3 cells, MHV-68, 8hpi, batch B
- GSM9396024 NIH3T3 cells, MHV-68, 8hpi, batch C
- GSM9396025 NIH3T3 cells, MHV-68, 12hpi, batch A
- GSM9396026 NIH3T3 cells, MHV-68, 12hpi, batch B
- GSM9396027 NIH3T3 cells, MHV-68, 12hpi, batch C
- GSM9396028 NIH3T3 cells, MHV-68, 24hpi, batch A
- GSM9396029 NIH3T3 cells, MHV-68, 24hpi, batch B
- GSM9396030 NIH3T3 cells, MHV-68, 24hpi, batch C
- GSE259380 TG6050, an oncolytic vaccinia virus encoding interleukin-12 and anti-CTLA-4 antibody induces tumor regression through profound tumor microenvironment remodeling and strong antitumor adaptive immune response [RNA-seq] 149 samples shares remodeling, rna-seq, lytic
- GSE277789 Spatiotemporal and genetic cell lineage tracing of endodermal organogenesis at single-cell resolution [Smart-seq3-RNA-seq-add] 830 samples shares temporal, rna-seq
- GSE166225 Inference of emergent spatio-temporal processes from single-cell sequencing reveals feedback between de novo DNA methylation and chromatin condensates [RNA-seq] 288 samples shares temporal, rna-seq
- GSE274492 The remodeling of bivalent chromatin is essential for mouse peri-implantation embryogenesis [Valid RNA-Seq] 200 samples shares remodeling, rna-seq
- GSE243942 Spatio-temporal X-linked gene reactivation in the mouse germline reveals site-specific retention of epigenetic silencing [RNA-seq] 125 samples shares temporal, rna-seq
- GSE297451 Temporal and Context-Dependent Requirements for the Transcription Factor Foxp3 in Regulatory T Cell Development and Maintenance [RNA-seq] 70 samples shares temporal, rna-seq
- GSE299114 Endothelial Cells retain inflammatory memory through chromatin remodeling [RNA-Seq 2] 53 samples shares remodeling, rna-seq
- GSE233811 Spatiotemporal transcriptomic map of glial cell response in a mouse model of acute brain ischemia [bulk RNA-Seq] 48 samples shares temporal, rna-seq
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.