Single-Cell RNA-seq analysis of small intestine neuroendocrine tumors reveals the cell of origin and trajectory of gene-expression associated with the early tumor development
Single-cell RNA-seq · human · 34 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart.
- Organism
- Homo sapiens (human)
- Topic
- Small intestine cancerThis series is part of our curated briefing on it.
- Samples
- 34 samples: 34 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
- Single-cell RNA-seq of small-intestinal neuroendocrine tumors reveals the cell of origin and gene expression of early tumor developmentCell reports · 2025
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 GSE279475_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: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.
Also filed as BioProject PRJNA1173093 and SRA study SRP542256. 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 34 sample titles: 34 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.
- GSM8572044 G1_CM_mRNA
- GSM8572045 G2_CM_mRNA
- GSM8572046 G3_PM_mRNA
- GSM8572047 G4_PM_mRNA
- GSM8572048 G5_PTM_mRNA
- GSM8572049 G7_PTM_mRNA
- GSM8572050 G8_PTM_mRNA
- GSM8572051 G9_PM_mRNA
- GSM8572052 G10_PM_mRNA
- GSM8572053 G11_CM_mRNA
- GSM8572054 G14_CM_mRNA
- GSM8572055 G15_PM_mRNA
- GSM8572056 G16_PM_mRNA
- GSM8572057 G17_PTM_mRNA
- GSM8572058 G18_PTM_mRNA
- GSM8572059 G19_PTM_mRNA
- GSM8572060 G21_PTM_mRNA
- GSM8572061 G22_PTM_mRNA
- GSM8572062 G23_PTM_mRNA
- GSM8572063 G24_PTM_mRNA
- GSM8572064 G25_PTM_mRNA
- GSM8572065 G30_PTM_mRNA
- GSM8572066 G32_PM_mRNA
- GSM8572067 G33_PM_mRNA
- GSM8572068 G34_PTM_mRNA
- GSM8572069 G35_PTM_mRNA
- GSM8572070 G42_PM_mRNA
- GSM8572071 G43_PTM_mRNA
- GSM8572072 G44_PTM_mRNA
- GSM8572073 G47_CM_mRNA
- GSM8572074 G48_CM_mRNA
- GSM8572075 G50_CM_mRNA
- GSM8572076 G51_CM_mRNA
- GSM8572077 G53_CM_mRNA
- GSE301265 Spatial Transcriptomics Reveals Local Subtype-Specific Identity and Signaling within Multifocal Small Intestinal Neuroendocrine Tumors 8 samples same disease briefing · shares neuroendocrine, small
- GSE277215 Insights into intestinal neuroendocrine tumors in relation to normal human EEC differentiation 53 samples same disease briefing · shares neuroendocrine
- GSE281740 single-cell RNA-sequence data of clinical small cell lung cancer samples 19 samples shares single-cell, rna-seq, small
- GSE243013 A single-cell atlas of immune heterogeneity in anti-PD1-treated non-small cell lung cancer 243 samples shares single-cell, small
- GSE327167 Single-cell RNA-seq profiling of pleural mesothelioma and comparator pleural specimens 113 samples shares single-cell, rna-seq
- GSE287301 Single-cell RNA-sequencing of HNSCC-infiltrating T cells 48 samples shares single-cell, rna-seq
- GSE334923 Single-cell RNA-seq atlas of peripheral blood and kidney graft immune cells in chronic antibody-mediated rejection 48 samples shares single-cell, rna-seq
- GSE227835 Single-cell RNA-seq data of human PBMC from Myasthenia Gravis patients 40 samples shares single-cell, rna-seq
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.