Contribution of crosstalk of mesothelial and tumoral epithelial cells in pleural metastasis of lung cancer
Single-cell RNA-seq · human · 12 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
- Lung cancerThis series is part of our curated briefing on it.
- Samples
- 12 samples: 3 × MET-5A, Control, vs 3 × MET-5A, Co-culture, vs 3 × A549, Control, vs 3 × A549, Co-culture,Groups 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
- Contribution of crosstalk of mesothelial and tumoral epithelial cells in pleural metastasis of lung cancerTranslational lung cancer research · 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 GSE242951_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 PRJNA1015604 and SRA study SRP459936. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 replicated groups read from 12 sample titles; they account for 12 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.
- GSM7775468 MET-5A, Control, rep1 MET-5A, Control,
- GSM7775469 MET-5A, Control, rep2 MET-5A, Control,
- GSM7775470 MET-5A, Control, rep3 MET-5A, Control,
- GSM7775471 MET-5A, Co-culture, rep1 MET-5A, Co-culture,
- GSM7775472 MET-5A, Co-culture, rep2 MET-5A, Co-culture,
- GSM7775473 MET-5A, Co-culture, rep3 MET-5A, Co-culture,
- GSM7775474 A549, Control, rep1 A549, Control,
- GSM7775475 A549, Control, rep2 A549, Control,
- GSM7775476 A549, Control, rep3 A549, Control,
- GSM7775477 A549, Co-culture, rep1 A549, Co-culture,
- GSM7775478 A549, Co-culture, rep2 A549, Co-culture,
- GSM7775479 A549, Co-culture, rep3 A549, Co-culture,
- GSE114761 Transforming Growth Factor β-Induced Epithelial-to-Mesenchymal Signature Predicts Metastasis-Free Survival in Non-Small Cell Lung Cancer. 42 samples same disease briefing · shares epithelial, metastasis, lung
- GSE127465 Single cell transcriptomics of human and mouse lung cancers reveals conserved myeloid populations across individuals and species 40 samples same disease briefing · shares lung
- GSE103550 Lung Cancer Cell-Mediated Skeletal Muscle Mitochondrial Dysfunction is Mitigated by 1a,25-Dihydroxyvitamin D3 24 samples same disease briefing · shares lung
- GSE241518 High-throughout sequencing of colorectal cancer and non-small cell lung cancer cells treated actived compound YHM18 4 samples same disease briefing · shares lung
- GSE10072 Gene expression signature of cigarette smoking and its role in lung adenocarcinoma development and survival 107 samples same disease briefing · shares lung
- GSE17958 Affymetrix SNP array data for 47 lung squamous cell carcinoma and 40 esophageal squamous cell carcinoma samples. 87 samples same disease briefing · shares lung
- GSE104244 Bone Marrow Derived Macrophages, NSCLC cell lines, and Kras G12D Lung Tumors Treated with Epigenetic Agents 33 samples same disease briefing · shares lung
- GSE117570 Reprogramming of Tumor-infiltrating Immune Cells in Early Stage of NSCLC 8 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.