Phenotypic plasticity and increased tissue infiltration of TREM1+ mono-macrophages following radiotherapy in rectal cancer. [RNA-Seq]
RNA-seq (gene expression) · human · 16 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
- Homo sapiens (human)
- Topic
- Colorectal cancerThis series is part of our curated briefing on it.
- Samples
- 16 samples: 16 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
- Phenotypic plasticity and increased infiltration of peripheral blood-derived TREM1(+) mono-macrophages following radiotherapy in rectal cancerCell reports. Medicine · 2025
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 GSE278405_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 PRJNA1167199. 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 16 sample titles: 16 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.
- GSM8545934 Donor1, LC, RNA-seq
- GSM8545935 Donor2, LC, RNA-seq
- GSM8545936 Donor3, LC, RNA-seq
- GSM8545937 Donor4, LC, RNA-seq
- GSM8545938 Donor5, LC, RNA-seq
- GSM8545939 Donor6, SIC, RNA-seq
- GSM8545940 Donor7, SIC, RNA-seq
- GSM8545941 Donor8, SIC, RNA-seq
- GSM8545942 Donor9, SIC, RNA-seq
- GSM8545943 Donor10, SIC, RNA-seq
- GSM8545944 Donor11, SIC, RNA-seq
- GSM8545945 Donor12, SIC, RNA-seq
- GSM8545946 Donor13, SIC, RNA-seq
- GSM8545947 Donor14, SIC, RNA-seq
- GSM8545948 Donor15, SIC, RNA-seq
- GSM8545949 Donor16, SIC, RNA-seq
- GSE250000 Bulk RNA-sequencing of transduced colorectal cancer cell line HCT-116 and breast cancer cell line MCF-7 overexpressing full-lenght p53β or p53β-stop-lost. 4 samples same disease briefing
- GSE12032 Inherent gene signature of stage II and III colorectal cancer leads in individual recurrence 198 samples same disease briefing
- GSE109308 Single-cell transcriptomic survey of adenomatous polyposis patients with germline APC mutations 97 samples same disease briefing
- GSE110009 Single cell transcriptome landscape of primary and metastatic tumor in colon cancer 76 samples same disease briefing
- GSE278406 Phenotypic plasticity and increased tissue infiltration of TREM1+ mono-macrophages following radiotherapy in rectal cancer. [scRNA-Seq] 6 samples shares trem1, mono-macrophages, infiltration, radiotherapy, phenotypic, plasticity, increased, following
- GSE315375 Increased MALAT1 Levels in Thyroid Cancer are Linked to Metabolic Reprogramming and Lymphatic Infiltration in Chilean population 2 samples shares infiltration, increased
- GSE308014 RNA‑seq of TREM1 pathway activation in human monocytes and neutrophils 32 samples shares trem1
- GSE300985 A standardized patient-derived glioblastoma organoid platform for evaluating radiotherapy efficacy and overcoming resistance 147 samples shares radiotherapy
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.