The function of FTO in small cell lung cancer [RNA-seq]
RNA-seq (gene expression) · human · 15 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
- 15 samples: 5 conditions, mostly in triplicateGroups 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 GSE300624_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 PRJNA1281577 and SRA study SRP594315. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 15 samples.
How we read this: 5 replicated groups read from 15 sample titles; they account for 15 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.
- GSM9065488 H69, DMSO, control1 H69, DMSO, control
- GSM9065489 H69, DMSO, control2 H69, DMSO, control
- GSM9065490 H69, DMSO, control3 H69, DMSO, control
- GSM9065491 H69, CS2, rep1 H69, CS2,
- GSM9065492 H69, CS2, rep2 H69, CS2,
- GSM9065493 H69, CS2, rep3 H69, CS2,
- GSM9065494 H69, FB23-2, rep1 H69, FB23-2,
- GSM9065495 H69, FB23-2, rep2 H69, FB23-2,
- GSM9065496 H69, FB23-2, rep3 H69, FB23-2,
- GSM9065497 H82, DMSO, control1 H82, DMSO, control
- GSM9065498 H82, DMSO, control2 H82, DMSO, control
- GSM9065499 H82, DMSO, control3 H82, DMSO, control
- GSM9065500 H82, FB23-2, rep1 H82, FB23-2,
- GSM9065501 H82, FB23-2, rep2 H82, FB23-2,
- GSM9065502 H82, FB23-2, rep3 H82, FB23-2,
- GSE281525 RNA-sequence data of clinically never-metastatic primary small cell lung cancer cases and small cell lung cancer metastasis cases, FOXA2 knock-down and overexpression in cell lines 61 samples same disease briefing · shares rna-seq, small, lung
- GSE296155 Loss of the USP22 deubiquitylase confers resistance to chemotherapy in small cell lung cancer [RNA-seq] 20 samples same disease briefing · shares rna-seq, small, lung
- 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 rna-seq, small, lung
- GSE337503 RNA-seq analysis of CSNK2B and P300 knockdown in NCI-H69 small cell lung cancer cells 9 samples same disease briefing · shares rna-seq, small, lung
- 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 rna-seq, small, lung
- GSE322516 Regulation of neuronal invasion of small cell lung cancer by STMN2/β-alanine-controlled metabolic reprogramming [Proximal_and_Distal-RNA-seq] 6 samples same disease briefing · shares rna-seq, small, lung
- GSE329205 EZH2 inhibition reshapes 3D chromatin architecture to induce immunogenic phenotype in small cell lung cancer [RNA-Seq] 6 samples same disease briefing · shares rna-seq, small, lung
- GSE255825 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 [bulk RNA-seq] 5 samples same disease briefing · shares rna-seq, small, lung
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.