Lymphatic-localized Treg-mregDC crosstalk limits antigen trafficking and restrains anti-tumor immunity
RNA-seq (gene expression) · mouse · 26 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
- 26 samples: 11 × Tumo vs 8 × Colon vs 5 × WTGroups 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
- Lymphatic-localized Treg-mregDC crosstalk limits antigen trafficking and restrains anti-tumor immunityCancer cell · 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 GSE234186_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 PRJNA980242 and SRA study SRP441273. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 1 samples read as cases, 6 as controls.
How we read this: 3 replicated groups read from 26 sample titles; they account for 24 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.
- GSM7453485 Tumor1 Tumo
- GSM7453486 Tumor2 Tumo
- GSM7453487 Tumor3 Tumo
- GSM7453488 Tumor4 Tumo
- GSM7453489 Tumor5 Tumo
- GSM7453490 WT1 WT
- GSM7453491 WT2 WT
- GSM7453492 WT3 WT
- GSM7453493 WT4 WT
- GSM7453494 WT5 WT
- GSM7453679 Tumor_immune
- GSM7453680 WT_immune
- GSM8384800 Tumor1 Tumo
- GSM8384801 Tumor2 Tumo
- GSM8384802 Tumor3 Tumo
- GSM8384803 Tumor4 Tumo
- GSM8384804 Tumor5 Tumo
- GSM8384805 Tumor6 Tumo
- GSM8384806 Colon1 Colon
- GSM8384807 Colon2 Colon
- GSM8384808 Colon3 Colon
- GSM8384809 Colon4 Colon
- GSM8384810 Colon5 Colon
- GSM8384811 Colon6 Colon
- GSM8384812 Colon7 Colon
- GSM8384813 Colon8 Colon
- GSE234180 Lymphatic-localized Treg-mregDC crosstalk limits antigen trafficking and restrains anti-tumor immunity [RNA-seq] 10 samples shares lymphatic-localized, treg-mregdc, trafficking, anti-tumor, crosstalk, restrains, immunity, antigen
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- GSE269630 Pharmacological Targeting of ALDH1a2 in Dendritic Cells Enhances Antigen Presentation, T Cell Activation and Anti-tumor immunity 10 samples shares anti-tumor, immunity, antigen
- GSE305350 CD27 Agonism Enhances Long-Lived CD4⁺ T Cell Vaccine Responses Critical for 2 Anti-Tumor Immunity 26 samples shares anti-tumor, immunity
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- 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
- GSE217807 ARID1A suppresses R-loop mediated STING-Type I Interferon pathway activation of anti-tumor immunity 62 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.