TGF-β builds a dual immune barrier in colorectal cancer by impairing T cell recruitment and instructing immunosuppressive SPP1+ macrophages
RNA-seq (gene expression) · mouse · 23 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
- 23 samples: 22 distinct titles, 1 of them repeatedGroups 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 GSE273148_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 PRJNA1140245 and SRA study SRP522271. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 6 samples read as cases, 3 as controls.
How we read this: Read from 23 sample titles: 22 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.
- GSM8422997 Fibroblasts sample 1 control
- GSM8422998 Fibroblasts sample 1 dual treatment
- GSM8422999 Fibroblasts sample 1 galunisertib
- GSM8423000 Fibroblasts sample 1 anti-PD-L1
- GSM8423001 Fibroblasts sample 2 control
- GSM8423002 Fibroblasts sample 2 dual treatment
- GSM8423003 Fibroblasts sample 2 galunisertib
- GSM8423004 Fibroblasts sample 2 anti-PD-L1
- GSM8423005 T cells &TCR control
- GSM8423006 T cells &TCR dual treatment
- GSM8423007 T cells &TCR galunisertib
- GSM8423008 T cells &TCR anti-PD-L1
- GSM8423009 Tumor microenvironment sample 1 control
- GSM8423010 Tumor microenvironment sample 1 dual treatment
- GSM8423011 Tumor microenvironment sample 1 galunisertib
- GSM8423012 Tumor microenvironment sample 1 anti-PD-L1
- GSM8423013 Tumor microenvironment sample 2 hashed library 1
- GSM8423014 Tumor microenvironment sample 2 hashed library 2
- GSM8423015 Tumor microenvironment sample 3 control a
- GSM8423016 Tumor microenvironment sample 3 control b
- GSM8423017 Tumor microenvironment sample 3 control c
- GSM8493767 Tumor microenvironment Lysm KO
- GSM8493768 Tumor microenvironment Lysm WT
- GSE272376 A dual TGF-β-driven immunosuppressive mechanism controls T cell recruitment and expansion in metastatic colorectal cancer 12 samples shares tgf, immunosuppressive, recruitment, colorectal
- GSE306627 TGFβ signaling in cancer-associated fibroblasts drives a hepatic gp130-dependent pro-metastatic inflammatory program in colorectal cancer 42 samples shares tgf, colorectal
- GSE306678 SPP1+ Macrophages Contribute to Hair Growth in Contact Hypersensitivity 21 samples shares spp1, macrophages
- GSE272503 Therapeutic silencing Spp1 in cardiac macrophages suppresses atrial fibrillation 14 samples shares spp1, macrophages
- GSE229222 Glutamine antagonist JHU083 reprograms immunosuppressive tumor-associated macrophages to drive tumor immunity in urologic cancers, bulk RNA-seq 12 samples shares immunosuppressive, macrophages
- GSE263879 Lipid influx enforces liver regeneration through the recruitment of CD36+ macrophages (scRNA-Seq and RNA-Seq) 10 samples shares recruitment, macrophages
- GSE260700 Glucose-driven histone lactylation promotes the immunosuppressive activity of monocyte-derived macrophages in glioblastoma 6 samples shares immunosuppressive, macrophages
- GSE242215 A molecular atlas of brain neurovascular interactions reveals a spatiotemporal requirement of TGFβ signaling in brain angiogenesis 13 samples shares tgf
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.