Microenvironment Shapes Small Cell Lung Cancer Neuroendocrine States and Presents Therapeutic Opportunities
RNA-seq (gene expression) · human · 12 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
- Small cell lung cancerThis series is part of our curated briefing on it.
- Samples
- 12 samples: 9 distinct titles, 2 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
- Microenvironment shapes small-cell lung cancer neuroendocrine states and presents therapeutic opportunitiesCell 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 GSE267310_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 PRJNA1111040 and SRA study SRP507309. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 12 sample titles: 9 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.
- GSM8263748 Tumor, Prot_1.1
- GSM8263749 Tumor, Prot_10.1
- GSM8263750 Tumor, Prot_11.1
- GSM8263751 Tumor, Prot_2.3
- GSM8263752 Tumor, Prot_2.2
- GSM8263753 Tumor, Prot_2.1
- GSM8263754 Tumor, Prot_3.2
- GSM8263755 Tumor, Prot_4.1
- GSM8263756 Tumor, Prot_5.2
- GSM8263757 Tumor, Prot_5.1
- GSM8263758 Tumor, Prot_6.1
- GSM8263759 Tumor, Prot_8.1
- GSE280219 ONECUT2 reprograms neuroendocrine fate and is an actionable therapeutic target in small cell lung cancer. 24 samples same disease briefing · shares neuroendocrine, therapeutic, small
- GSE268219 Phase separation of RXRγ drives tumor chemoresistance and represents a therapeutic target for small cell lung cancer [RNA-Seq] 8 samples same disease briefing · shares therapeutic, presents, small
- GSE273409 DNAPKCs as a therapeutic target in small cell lung cancer 36 samples same disease briefing · shares therapeutic, small
- GSE303770 ISL1: A Novel Neuroendocrine Subtype in Small Cell Lung Cancer Predicts Durable Response to Lurbinectedin 24 samples same disease briefing · shares neuroendocrine, small
- GSE274458 Crosstalk between cancer-associated fibroblasts and non-neuroendocrine tumor cells in small cell lung cancer involves in glycolysis and antigen-presenting features 15 samples same disease briefing · shares neuroendocrine, small
- GSE256347 SMARCA4 controls state plasticity in small cell lung cancer through regulation of neuroendocrine transcription factors and REST splicing [RNA-seq] 13 samples same disease briefing · shares neuroendocrine, small
- GSE319155 Single-cell profiling of tumor lineage plasticity and the immune microenvironment in transformed small cell lung cancer 7 samples same disease briefing · shares microenvironment, small
- GSE255757 Formation of malignant, metastatic small cell lung cancers through overproduction of cMYC protein in TP53 and RB1 depleted pulmonary neuroendocrine cells derived from human embryonic stem cells 6 samples same disease briefing · shares neuroendocrine, small
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.