PRMT5-mediated SRSF1 methylation promotes virus-positive Merkel cell carcinoma tumorigenesis by increasing Tip60 exon inclusion
DNA methylation · human · 16 samples
- What it is
- DNA methylationChemical marks on DNA that help switch genes on or off.
- Organism
- Homo sapiens (human)
- Topic
- Merkel cell carcinomaThis series is part of our curated briefing on it.
- Samples
- 16 samples: 16 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.
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 GSE290609_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: Look for beta-value tables or raw IDAT files among the supplementary files.
Also filed as BioProject PRJNA1228975 and SRA study SRP565311. 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 16 sample titles: 16 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.
- GSM8806232 MKL-1, DMSO, biol rep 1, Illumina NovaSeq X
- GSM8806233 MKL-1, DMSO, biol rep 2, Illumina NovaSeq X
- GSM8806234 MKL-1, DMSO, biol rep 3, Illumina NovaSeq X
- GSM8806235 MKL-1, DMSO, biol rep 4, Illumina NovaSeq X
- GSM8806236 MKL-1, JNJ-64619178, biol rep 1, Illumina NovaSeq X
- GSM8806237 MKL-1, JNJ-64619178, biol rep 2, Illumina NovaSeq X
- GSM8806238 MKL-1, JNJ-64619178, biol rep 3, Illumina NovaSeq X
- GSM8806239 MKL-1, JNJ-64619178, biol rep 4, Illumina NovaSeq X
- GSM8816767 MKL-1, DMSO, biol rep 1, PacBio Sequel IIe
- GSM8816768 MKL-1, DMSO, biol rep 2, PacBio Sequel IIe
- GSM8816769 MKL-1, DMSO, biol rep 3, PacBio Sequel IIe
- GSM8816770 MKL-1, DMSO, biol rep 4, PacBio Sequel IIe
- GSM8816771 MKL-1, JNJ-64619178, biol rep 1, PacBio Sequel IIe
- GSM8816772 MKL-1, JNJ-64619178, biol rep 2, PacBio Sequel IIe
- GSM8816773 MKL-1, JNJ-64619178, biol rep 3, PacBio Sequel IIe
- GSM8816774 MKL-1, JNJ-64619178, biol rep 4, PacBio Sequel IIe
- GSE290569 PRMT5-mediated SRSF1 methylation promotes virus-positive Merkel cell carcinoma tumorigenesis by increasing Tip60 exon inclusion [PacBio Sequel IIe] 8 samples same disease briefing · shares srsf1, tip60, prmt5-mediated, virus-positive, tumorigenesis, methylation, increasing, inclusion
- 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
- 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
- GSE292992 MDM2 degradation overcomes feedback regulation of p53 signaling in Merkel cell carcinoma 66 samples same disease briefing
- GSE317774 ATR inhibition induces NF-κB-dependent immunogenicity in Merkel cell carcinoma independent of cGAS-STING 48 samples same disease briefing
- 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
- 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
- GSE326661 Reprogramming engineered autologous T cells to overcome resistance in Merkel cell carcinoma [scRNA-seq] 22 samples same disease briefing
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.