LTBR-mediated immunomodulation of the tumor microenvironment promotes anti-tumor responses
RNA-seq (gene expression) · mouse · 20 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
- 20 samples: 5 × EV_ISO vs 5 × EV_LTB vs 5 × LTα_ISO vs 5 × LTα_LTBGroups 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
- LTβR Agonism Promotes Antitumor Immune Responses via Modulation of the Tumor MicroenvironmentCancer research · 2024
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 GSE243170_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 PRJNA1016471 and SRA study SRP460370. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 20 samples.
How we read this: 4 replicated groups read from 20 sample titles; they account for 20 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.
- GSM7780156 EV_ISO_1 EV_ISO
- GSM7780157 EV_ISO_2 EV_ISO
- GSM7780158 EV_ISO_3 EV_ISO
- GSM7780159 EV_LTBR_1 EV_LTB
- GSM7780160 EV_LTBR_2 EV_LTB
- GSM7780161 EV_LTBR_3 EV_LTB
- GSM7780162 LTα_ISO_1 LTα_ISO
- GSM7780163 LTα_ISO_2 LTα_ISO
- GSM7780164 LTα_ISO_3 LTα_ISO
- GSM7780165 LTα_LTBR_1 LTα_LTB
- GSM7780166 LTα_LTBR_2 LTα_LTB
- GSM7780167 LTα_LTBR_3 LTα_LTB
- GSM7780168 EV_ISO_4 EV_ISO
- GSM7780169 EV_ISO_5 EV_ISO
- GSM7780170 EV_LTBR_4 EV_LTB
- GSM7780171 EV_LTBR_5 EV_LTB
- GSM7780172 LTα_ISO_4 LTα_ISO
- GSM7780173 LTα_ISO_5 LTα_ISO
- GSM7780174 LTα_LTBR_4 LTα_LTB
- GSM7780175 LTα_LTBR_5 LTα_LTB
- 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
- GSE319318 Inactivation of CDKN2A-ARF Promotes p53-Independent Remodeling of the PDAC Tumor Microenvironment [RNA-Seq] 20 samples shares microenvironment, promotes
- GSE298273 Tumor-derived RAC1A159V mutation promotes an immunosuppressive tumor microenvironment that represses response to immune checkpoint inhibitor [RNA-Seq] 12 samples shares microenvironment, promotes
- GSE316540 α2,6-Sialoglycan-regulated anti-tumor immunity of tumor-infiltrating CD8+ T cells in the tumor microenvironment 9 samples shares microenvironment, anti-tumor
- GSE218178 Adaptation to an acid microenvironment promotes pancreatic cancer organoid growth and drug resistance 183 samples shares microenvironment, promotes
- GSE218173 Adaptation to an acid microenvironment promotes pancreatic cancer organoid growth and drug resistance [acid] 150 samples shares microenvironment, promotes
- GSE237643 Deletion of the mRNA endonuclease Regnase-1 promotes NK cell anti-tumor activity via OCT2- dependent transcription of Ifng 58 samples shares anti-tumor, promotes
- 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
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.