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ASCL1 over-expression in neuroblastoma cell lines [RNA-seq]

GSE213430 Homo sapiens (human) RNA-seq (gene expression) 20 samples Submitted 2026/03/28 Platform GPL24676
At a glance

RNA-seq (gene expression) · human · 20 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
NeuroblastomaThis series is part of our curated briefing on it.
Samples
20 samples: 5 × BE2C-uninduced vs 5 × BE2C-ASCL1-induced vs 5 × IMR32-uninduced vs 5 × IMR32-ASCL1-inducedGroups 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.
Summary (written by the submitters)
To compare the function of overexpressed ASCL1 in two MYCN-amplified neuroblastoma cell contexts, we have used a doxycycline-inducible lentivirus system to induce ASCL1 overexpression in SK-N-BE(2)C and IMR-32 cell lines, and assessed the transcriptome wide impact of ASCL1 overexpression using RNA-seq.
This dataset
Open GSE213430 in finder → Find more human RNA-seq datasets → Neuroblastoma landscape →
Download · which file do I need?

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.

1 · Just have a look

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.

Series matrix ↓
2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE213430_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓
3 · Start from the raw reads

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.

Raw reads on ENA ↗

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 PRJNA880634 and SRA study SRP397439. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
5 × BE2C-uninduced vs 5 × BE2C-ASCL1-induced vs 5 × IMR32-uninduced vs 5 × IMR32-ASCL1-induced

Supports a between-group comparison across 20 samples.

How we read this: 4 replicated groups read from 20 sample titles; they account for 20 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.

Samples in this study
More Neuroblastoma datasets

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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.