Differential RNA-seq analysis of MB135iDUX4 with CRISPR/Cas9-mediated KLF18 knockouts
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)
- Samples
- 12 samples: 3 × MB135iDUX4ca_WT_NoDox vs 3 × MB135iDUX4ca_WT_PlusDox vs 3 × MB135iDUX4ca_KLF18KO1_PlusDox vs 3 × MB135iDUX4ca_KLF18KO2_PlusDoxGroups 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
- KLF18 is a necessary component of the DUX4-initiated transcriptional network and a candidate locus for phenotypic diversityGenes & development · 2026
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 GSE316239_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 PRJNA1401842 and SRA study SRP661607. 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.
- GSM9447733 MB135iDUX4ca_WT_NoDox_1 MB135iDUX4ca_WT_NoDox
- GSM9447734 MB135iDUX4ca_WT_NoDox_2 MB135iDUX4ca_WT_NoDox
- GSM9447735 MB135iDUX4ca_WT_NoDox_3 MB135iDUX4ca_WT_NoDox
- GSM9447736 MB135iDUX4ca_WT_PlusDox_1 MB135iDUX4ca_WT_PlusDox
- GSM9447737 MB135iDUX4ca_WT_PlusDox_2 MB135iDUX4ca_WT_PlusDox
- GSM9447738 MB135iDUX4ca_WT_PlusDox_3 MB135iDUX4ca_WT_PlusDox
- GSM9447739 MB135iDUX4ca_KLF18KO1_PlusDox_1 MB135iDUX4ca_KLF18KO1_P…
- GSM9447740 MB135iDUX4ca_KLF18KO1_PlusDox_2 MB135iDUX4ca_KLF18KO1_P…
- GSM9447741 MB135iDUX4ca_KLF18KO1_PlusDox_3 MB135iDUX4ca_KLF18KO1_P…
- GSM9447742 MB135iDUX4ca_KLF18KO2_PlusDox_1 MB135iDUX4ca_KLF18KO2_P…
- GSM9447743 MB135iDUX4ca_KLF18KO2_PlusDox_2 MB135iDUX4ca_KLF18KO2_P…
- GSM9447744 MB135iDUX4ca_KLF18KO2_PlusDox_3 MB135iDUX4ca_KLF18KO2_P…
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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.