Role of Cancer-Associated Fibroblasts in Prognostic Stratification of Advanced-Stage Gastric Cancer through Interacting with Endothelial and Malignant Epithelial Cells [AGC RNA-seq]
Single-cell RNA-seq · human · 216 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart. Read from the summary: GEO's own type field only says 'expression profiling by sequencing', so confirm it in the paper.
- Organism
- Homo sapiens (human)
- Topic
- Gastric cancerThis series is part of our curated briefing on it.
- Samples
- 216 samples: 108 × N vs 108 × CGroups 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.
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 GSE275647_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 PRJNA1152545. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 216 samples.
How we read this: 2 replicated groups read from 216 sample titles; they account for 216 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.
- GSM8481691 N0031 N
- GSM8481692 N0034 N
- GSM8481693 N0040 N
- GSM8481694 N0046 N
- GSM8481695 N0048 N
- GSM8481696 N0053 N
- GSM8481697 N0056 N
- GSM8481698 N0064 N
- GSM8481699 N0070 N
- GSM8481700 N0086 N
- GSM8481701 N0087 N
- GSM8481702 N0089 N
- GSM8481703 N0090 N
- GSM8481704 N0092 N
- GSM8481705 N0097 N
- GSM8481706 N0101 N
- GSM8481707 N0104 N
- GSM8481708 N0105 N
- GSM8481709 N0107 N
- GSM8481710 N0110 N
- GSM8481711 N0119 N
- GSM8481712 N0122 N
- GSM8481713 N0132 N
- GSM8481714 N0136 N
- GSM8481715 N0140 N
- GSM8481716 N0148 N
- GSM8481717 N0151 N
- GSM8481718 N0164 N
- GSM8481719 N0165 N
- GSM8481720 N0171 N
- GSM8481721 N0173 N
- GSM8481722 N0176 N
- GSM8481723 N0177 N
- GSM8481724 N0183 N
- GSM8481725 N0185 N
- GSM8481726 N0187 N
- GSM8481727 N0189 N
- GSM8481728 N0191 N
- GSM8481729 N0199 N
- GSM8481730 N0200 N
+ 176 more — browse all 216 samples with per-sample file links →
- GSE13861 Gene expression signature-based novel prognostic risk score in gastric cancer 90 samples same disease briefing · shares prognostic
- GSE134520 Dissecting the single-cell transcriptome network underlying gastric premalignant lesions and early gastric cancer [10x genomics] 13 samples same disease briefing
- GSE163558 Transcriptional heterogeneity in primary and metastatic gastric cancer revealed using single-cell RNA sequencing 10 samples same disease briefing
- GSE173195 Roles of LTBP1 in the gastric cancer cells 6 samples same disease briefing
- GSE182543 ALKBH5 cooperated with LINC00659 promote gastric cancer progression by JAK1 mRNA m6A-YTHDF2-dependent modification [polyA] 6 samples same disease briefing
- GSE103045 Genetic and epigenetic gene inactivation coupling with KRAS activation in human gastric cancer [RNA-Seq] 3 samples same disease briefing
- GSE119196 HOXC10 Overexpression Promotes Cell Proliferation and Migration through Regulation of CST1 Expression in Gastric Cancer 2 samples same disease briefing
- GSE171054 NINJ2 inhibition increased chemo-sensitivity by decreasing CICs in chemotherapy-resistant gastric cancer 2 samples same disease briefing
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.