Deciphering metastatic route-specific signals and their microenvironment interactions in peritoneal metastasis of gastric cancer
Single-cell RNA-seq · human · 66 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
- 66 samples: 56 distinct titles, 9 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.
- Paper
- Deciphering metastatic route-specific signals and their microenvironment interactions in peritoneal metastasis of gastric cancerCancer communications (London, England) · 2024
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 GSE237876_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 PRJNA996979 and SRA study SRP451279. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 66 sample titles: 56 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.
- GSM7655851 tumor, primary T, pat001, rep1
- GSM7655852 tumor, liver meta, pat001, rep1
- GSM7655853 tumor, primary T1, pat002, rep1
- GSM7655854 tumor, primary T2, pat002, rep1
- GSM7655855 tumor, liver meta, pat002, rep1
- GSM7655856 tumor, liver meta, pat002, rep2
- GSM7655857 tumor, liver meta, pat002, rep3
- GSM7655858 tumor, primary T, pat003, rep1
- GSM7655859 tumor, liver meta, pat003, rep1
- GSM7655860 tumor, liver meta, pat003, rep2
- GSM7655861 tumor, primary T1, pat004, rep1
- GSM7655862 tumor, primary T2, pat004, rep1
- GSM7655863 tumor, primary T3, pat004, rep1
- GSM7655864 tumor, lung meta, pat004, rep1
- GSM7655865 tumor, primary T1, pat005, rep1
- GSM7655866 tumor, primary T2, pat005, rep1
- GSM7655867 tumor, primary T3, pat005, rep1
- GSM7655868 tumor, perit meta, pat005, rep1
- GSM7655869 tumor, perit meta, pat005, rep2
- GSM7655870 tumor, primary T1a, pat006, rep1
- GSM7655871 tumor, primary T1b, pat006, rep1
- GSM7655872 tumor, primary T2, pat006, rep1
- GSM7655873 tumor, primary T3, pat006, rep1
- GSM7655874 tumor, ovary meta, pat006, rep1
- GSM7655875 tumor, ovary meta, pat006, rep2
- GSM7655876 tumor, primary T1a, pat007, rep1
- GSM7655877 tumor, primary T1b, pat007, rep1
- GSM7655878 tumor, primary T2, pat007, rep1
- GSM7655879 tumor, primary T3, pat007, rep1
- GSM7655880 tumor, ovary meta, pat007, rep1
- GSM7655881 tumor, primary T1, pat008, rep1
- GSM7655882 tumor, primary T2, pat008, rep1
- GSM7655883 tumor, primary T3, pat008, rep1
- GSM7655884 tumor, ovary meta, pat008, rep1
- GSM7655885 tumor, ovary meta, pat008, rep2
- GSM7655886 tumor, primary T1, pat009, rep1
- GSM7655887 tumor, primary T2, pat009, rep1
- GSM7655888 tumor, primary T3, pat009, rep1
- GSM7655889 tumor, ovary meta, pat009, rep1
- GSM7655890 tumor, ovary meta, pat009, rep2
+ 26 more — browse all 66 samples with per-sample file links →
- GSE163558 Transcriptional heterogeneity in primary and metastatic gastric cancer revealed using single-cell RNA sequencing 10 samples same disease briefing · shares metastatic
- GSE134520 Dissecting the single-cell transcriptome network underlying gastric premalignant lesions and early gastric cancer [10x genomics] 13 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
- GSE182542 ALKBH5 cooperated with LINC00659 promote gastric cancer progression by JAK1 mRNA m6A-YTHDF2-dependent modification [2-m6A] 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.