Host response to Merkel cell polyomavirus oncogenes in neonatal human dermal fibroblast
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)
- Topic
- Merkel cell carcinomaThis series is part of our curated briefing on it.
- 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.
- Paper
- Integrative analysis reveals therapeutic potential of pyrvinium pamoate in Merkel cell carcinomaThe Journal of clinical investigation · 2025
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 GSE278335_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 PRJNA1166677 and SRA study SRP535483. Searching any of these in the dataset finder brings you back here.
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.
- GSM8545029 CTRL_0_1 CTRL_0
- GSM8545030 CTRL_0_2 CTRL_0
- GSM8545031 CTRL_0_3 CTRL_0
- GSM8545032 CTRL_48_1 CTRL_48
- GSM8545033 CTRL_48_2 CTRL_48
- GSM8545034 CTRL_48_3 CTRL_48
- GSM8545035 CTRL_96_1 CTRL_96
- GSM8545036 CTRL_96_2 CTRL_96
- GSM8545037 CTRL_96_3 CTRL_96
- GSM8545038 ER_0_1 ER_0
- GSM8545039 ER_0_2 ER_0
- GSM8545040 ER_0_3 ER_0
- GSM8545041 ER_48_1 ER_48
- GSM8545042 ER_48_2 ER_48
- GSM8545043 ER_48_3 ER_48
- GSM8545044 ER_96_1 ER_96
- GSM8545045 ER_96_2 ER_96
- GSM8545046 ER_96_3 ER_96
- GSE281260 Spatially organized inflammatory myeloid-CD8+ T cell aggregates linked to Merkel-cell Polyomavirus driven Reorganization of the Tumor Microenvironment 146 samples same disease briefing · shares polyomavirus, merkel
- GSE229019 Merkel cell polyomavirus small tumor antigen contributes to immune evasion by interfering with type I interferon signaling [RNA-Seq] 28 samples same disease briefing · shares polyomavirus, merkel
- GSE294075 Delta-catenin is required for cell proliferation in virus positive Merkel cell carcinoma cell lines but not in human fibroblasts 6 samples same disease briefing · shares fibroblast, merkel
- GSE254170 Merkel cell polyomavirus pan-T antigen knockdown reduces cancer cell stemness and promotes neural differentiation independent of RB1 3 samples same disease briefing · shares polyomavirus, merkel
- GSE235093 Pre-existing skin-resident CD8 and γδ T cell circuits mediate immune response in Merkel cell carcinoma and Predict immunotherapy efficacy 333 samples same disease briefing · shares merkel
- GSE292992 MDM2 degradation overcomes feedback regulation of p53 signaling in Merkel cell carcinoma 66 samples same disease briefing · shares merkel
- GSE317774 ATR inhibition induces NF-κB-dependent immunogenicity in Merkel cell carcinoma independent of cGAS-STING 48 samples same disease briefing · shares merkel
- GSE154938 Glucose-6-Phosphate Dehydrogenase as a Prognostic Predictor Correlates with the Tumor Immune Activity Including Programmed Death Ligand-1 Expression in Merkel Cell Carcinoma 41 samples same disease briefing · shares merkel
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.