MHC II-restricted neoantigen vaccine reverses immune microenvironment and overcomes resistance to immune checkpoint inhibitors in cold tumors.
RNA-seq (gene expression) · mouse · 13 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
- 13 samples: 13 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
- MHC-II-restricted neoantigen vaccine reverses immune microenvironment and overcomes resistance to immune-checkpoint inhibitors in cold tumorsMed (New York, N.Y.) · 2026
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 GSE275681_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 PRJNA1152556 and SRA study SRP528763. 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 13 sample titles: 13 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.
- GSM8482358 Fresh tumor 1, B16F10 tumor bearing mice treated with saline
- GSM8482359 Fresh tumor 2, B16F10 tumor bearing mice treated with saline
- GSM8482360 Fresh tumor 3, B16F10 tumor bearing mice treated with saline
- GSM8482361 Fresh tumor 4, B16F10 tumor bearing mice treated with saline
- GSM8482362 Fresh tumor 5, B16F10 tumor bearing mice treated with saline
- GSM8482363 Fresh tumor 1, B16F10 tumor bearing mice treated with M44 vaccine
- GSM8482364 Fresh tumor 2, B16F10 tumor bearing mice treated with M44 vaccine
- GSM8482365 Fresh tumor 3, B16F10 tumor bearing mice treated with M44 vaccine
- GSM8482366 Fresh tumor 4, B16F10 tumor bearing mice treated with M44 vaccine
- GSM8482367 Fresh tumor 5, B16F10 tumor bearing mice treated with M44 vaccine
- GSM8482368 Fresh tumor, B16F10 tumor bearing mice treated with saline
- GSM8482369 Fresh tumor, B16F10 tumor bearing mice treated with M44 vaccine
- GSM8482370 Fresh tumor, B16F10 tumor bearing mice treated with M44 vaccine and TIGIT antibody
- GSE218178 Adaptation to an acid microenvironment promotes pancreatic cancer organoid growth and drug resistance 183 samples shares microenvironment, resistance
- GSE218173 Adaptation to an acid microenvironment promotes pancreatic cancer organoid growth and drug resistance [acid] 150 samples shares microenvironment, resistance
- GSE218177 Adaptation to an acid microenvironment promotes pancreatic cancer organoid growth and drug resistance [drug] 33 samples shares microenvironment, resistance
- GSE310501 Mesothelioma location influences the tumour microenvironment and immune checkpoint therapy response in preclinical models 31 samples shares microenvironment, checkpoint
- GSE298273 Tumor-derived RAC1A159V mutation promotes an immunosuppressive tumor microenvironment that represses response to immune checkpoint inhibitor [RNA-Seq] 12 samples shares microenvironment, checkpoint
- GSE253092 Tumour-intrinsic endomembrane trafficking by ARF6 shapes an immunosuppressive microenvironment that drives melanomagenesis and response to checkpoint blockade therapy [bulk RNA-seq] 12 samples shares microenvironment, checkpoint
- GSE301138 Combining p53 mRNA nanotherapy with immune checkpoint blockade reprograms the immune microenvironment for effective cancer therapy 11 samples shares microenvironment, checkpoint
- GSE235598 Systemically inducing trained immunity overcomes solid tumors’ immunosuppressive microenvironment 12 samples shares microenvironment, overcomes
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.