Targeting IRE1α reprograms the tumor microenvironment and enhances anti-tumor immunity in prostate cancer
RNA-seq (gene expression) · mouse · 27 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
- 27 samples: 8 conditions, mostly in duplicateGroups 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 IRE1α reprograms the tumor microenvironment and enhances anti-tumor immunity in prostate cancerNature communications · 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 GSE240383_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 PRJNA1003471 and SRA study SRP454053. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 12 samples read as cases, 2 as controls.
How we read this: 8 replicated groups read from 27 sample titles; they account for 21 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.
- GSM7697023 MycCap Cells, WildType, rep1 MycCap Cells, WildType,
- GSM7697024 MycCap Cells, WildType, rep2 MycCap Cells, WildType,
- GSM7697025 MycCap Cells, IRE1A KO1, rep1 MycCap Cells, IRE1A KO1,
- GSM7697026 MycCap Cells, IRE1A KO1, rep2 MycCap Cells, IRE1A KO1,
- GSM7697027 MycCap Cells, IRE1A KO2, rep1 MycCap Cells, IRE1A KO2,
- GSM7697028 MycCap Cells, IRE1A KO2, rep2 MycCap Cells, IRE1A KO2,
- GSM7697029 MycCap Cells, IRE1A KO3, rep1 MycCap Cells, IRE1A KO3,
- GSM7697030 MycCap Cells, IRE1A KO3, rep2 MycCap Cells, IRE1A KO3,
- GSM7697031 MycCap Tumors, WildType, rep1 MycCap Tumors, WildType,
- GSM7697032 MycCap Tumors, WildType, rep2 MycCap Tumors, WildType,
- GSM7697033 MycCap Tumors, WildType, rep3 MycCap Tumors, WildType,
- GSM7697034 MycCap Tumors, WildType, rep4 MycCap Tumors, WildType,
- GSM7697035 MycCap Tumors, IRE1A KO1, rep1 MycCap Tumors, IRE1A KO…
- GSM7697036 MycCap Tumors, IRE1A KO1, rep2 MycCap Tumors, IRE1A KO…
- GSM7697037 MycCap Tumors, IRE1A KO1, rep3 MycCap Tumors, IRE1A KO…
- GSM7697038 MycCap Tumors, IRE1A KO2, rep1 MycCap Tumors, IRE1A KO…
- GSM7697039 MycCap Tumors, IRE1A KO2, rep2 MycCap Tumors, IRE1A KO…
- GSM7697040 MycCap Tumors, IRE1A KO2, rep3 MycCap Tumors, IRE1A KO…
- GSM7697041 MycCap Tumors, IRE1A KO3, rep1 MycCap Tumors, IRE1A KO…
- GSM7697042 MycCap Tumors, IRE1A KO3, rep2 MycCap Tumors, IRE1A KO…
- GSM7697043 MycCap Tumors, IRE1A KO3, rep3 MycCap Tumors, IRE1A KO…
- GSM7697248 MycCap Tumors, WildType, rep4, scRNA
- GSM7697249 MycCap Tumors, IRE1A KO2, scRNA
- GSM8428794 PTEN KO MycCap Tumors, IgG + Vehicle
- GSM8428795 PTEN KO MycCap Tumors, anti-PD1 + Vehicle
- GSM8428796 PTEN KO MycCap Tumors, IgG + MKC8866
- GSM8428797 PTEN KO MycCap Tumors, anti-PD1 + MKC8866
- GSE316541 α2,6-Sialoglycan-regulated anti-tumor immunity of tumor-infiltrating CD8+ T cells in the tumor microenvironment [CD8+T] 27 samples shares microenvironment, anti-tumor, immunity
- GSE316540 α2,6-Sialoglycan-regulated anti-tumor immunity of tumor-infiltrating CD8+ T cells in the tumor microenvironment 9 samples shares microenvironment, anti-tumor, immunity
- GSE333386 PARK7-Mediated Delactylation of SF3B Reprograms RNA Splicing to Attenuate Fibrosis and Promote Anti-Tumor Immunity 9 samples shares reprograms, anti-tumor, immunity
- GSE284365 IRE1α Downregulation Enhances STING-Mediated Chemoresistance and Guides Precision Therapies in Pancreatic Cancer 12 samples shares ire1, enhances
- GSE293874 Anchored screening identifies transcription factor blueprints underlying dendritic cell diversity and subset-specific anti-tumor immunity [mouse bulk RNA-seq] 167 samples shares anti-tumor, immunity
- GSE278990 Single-cell screens identify ADAM12 as a fibroblast checkpoint impeding anti-tumor immunity 73 samples shares anti-tumor, immunity
- GSE322775 Coordinated immune activation following KRAS inhibition reveals molecular pathways that potentiate and limit anti-tumor immunity 47 samples shares anti-tumor, immunity
- GSE278980 Single-cell screens identify ADAM12 as a fibroblast checkpoint impeding anti-tumor immunity - RNA-seq of C57BL/6 murine models 32 samples shares anti-tumor, immunity
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.