Modeling Lung Adenocarcinoma Metastases Using Patient-Derived Organoids
RNA-seq (gene expression) · human · 26 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
- Lung cancerThis series is part of our curated briefing on it.
- Samples
- 26 samples: 16 distinct titles, 1 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
- Modeling lung adenocarcinoma metastases using patient-derived organoidsCell reports. Medicine · 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 GSE276387_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 PRJNA1157185 and SRA study SRP530581. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 26 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.
- GSM8497636 Patient derived organoid from sample 23 EARLY PASSAGE
- GSM8497637 Patient derived organoid from sample 23 LATE PASSAGE
- GSM8497638 Human tumor sample 23.
- GSM8497639 Patient derived organoid from sample 23 W. GL
- GSM8497640 Metastasis derived organoid harvested from mouse brain. Origins from PDO23.
- GSM8497641 Metastasis derived organoid harvested from mouse diaphram. Origins from PDO23.
- GSM8497642 Metastasis derived organoid harvested from mouse liver. Origins from PDO23.
- GSM8497643 Metastasis derived organoid harvested from mouse gallbladder. Origins from PDO23.
- GSM8497644 Patient derived organoid from sample 1
- GSM8497645 Patient derived organoid from sample 2
- GSM8497646 Patient derived organoid from sample 4
- GSM8497647 Patient derived organoid from sample 5
- GSM8497648 Patient derived organoid from sample 6
- GSM8497649 Patient derived organoid from sample 6 W. GL
- GSM8497650 Patient derived organoid from sample 7
- GSM8497651 Patient derived organoid from sample 9
- GSM8497652 Patient derived organoid from sample 11
- GSM8497653 Patient derived organoid from sample 12
- GSM8497654 Patient derived organoid from sample 16 EARLY PASSAGE
- GSM8497655 Patient derived organoid from sample 18
- GSM8497656 Patient derived organoid from sample 24
- GSM8497657 Metastasis derived organoid harvested from mouse brain. Origins from PDO6.
- GSM8497658 Human tumor sample 16.
- GSM8497659 Human tumor sample 18.
- GSM8497660 Human tumor sample 1.
- GSM8497661 Patient derived organoid from sample 16 LATE PASSAGE
- GSE10072 Gene expression signature of cigarette smoking and its role in lung adenocarcinoma development and survival 107 samples same disease briefing · shares adenocarcinoma, 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
- 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
- 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 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.