Merkel cell polyomavirus small tumor antigen contributes to immune evasion by interfering with type I interferon signaling [RNA-Seq]
RNA-seq (gene expression) · human · 28 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
- 28 samples: 28 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
- Merkel cell polyomavirus small tumor antigen contributes to immune evasion by interfering with type I interferon signalingPLoS pathogens · 2024
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 GSE229019_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 PRJNA952559 and SRA study SRP431175. 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 28 sample titles: 28 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.
- GSM7147878 untreated_DonorI
- GSM7147879 untreated_DonorII
- GSM7147880 p601_d3_DonorII
- GSM7147881 p604_d3_DonorII
- GSM7147882 p601_d8_DonorII
- GSM7147883 p604_d8_DonorII
- GSM7147884 p601_d3_DonorI
- GSM7147885 p604_d3_DonorI
- GSM7147886 p601_d8_DonorI
- GSM7147887 p604_d8_DonorI
- GSM7147888 p600_d3_DonorII
- GSM7147889 p605_d3_DonorII
- GSM7147890 p600_d8_DonorII
- GSM7147891 p605_d8_DonorII
- GSM7147892 p600_d3_DonorI
- GSM7147893 p605_d3_DonorI
- GSM7147894 p600_d8_DonorI
- GSM7147895 p605_d8_DonorI
- GSM7147896 p602_d8_DonorII
- GSM7147897 p602_d8_DonorI
- GSM7147898 p600and601_d12_DonorI
- GSM7147899 p604and605_d12_DonorI
- GSM7147900 p600and601_d9_DonorII
- GSM7147901 p604and605_d9_DonorII
- GSM7147902 p602_d3_DonorI
- GSM7147903 p602_d3_DonorII
- GSM7147904 p602and604_d3_DonorI
- GSM7147905 p602and604_d3_DonorII
- 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, antigen, merkel
- 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
- GSE326661 Reprogramming engineered autologous T cells to overcome resistance in Merkel cell carcinoma [scRNA-seq] 22 samples same disease briefing · shares rna-seq, merkel
- GSE278335 Host response to Merkel cell polyomavirus oncogenes in neonatal human dermal fibroblast 18 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.