Conserved roles for murine mDUX and human DUX4 in activating cleavage stage genes and MERVL/HERVL retrotransposons [RNA-Seq Human]
RNA-seq (gene expression) · human · 8 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
- 8 samples
- 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 GSE95516_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 PRJNA377314 and SRA study SRP100860. Searching any of these in the dataset finder brings you back here.
The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.
+ 8 more — browse all 8 samples with per-sample file links →
- GSE316237 Differential RNA-seq analysis of MB135iDUX4 with siRNA mediated knockdown of KLF17 and KLF18 18 samples shares dux4, rna-seq
- GSE316240 Differential RNA-seq analyses in MB135iDUX4_KLF18 KO_i3xFLAG-KLF18_AAVSI short and long cell lines 18 samples shares dux4, rna-seq
- GSE287564 H4K20me3 erasure facilitates reprogramming to totipotent-like state by promoting DUX4 mediated transcription [RNA-Seq] 12 samples shares dux4, rna-seq
- GSE316239 Differential RNA-seq analysis of MB135iDUX4 with CRISPR/Cas9-mediated KLF18 knockouts 12 samples shares dux4, rna-seq
- GSE316242 Differential RNA-seq analyses in MB135iDUX4_KLF18 KO_i3xFLAG-KLF18_AAVSI long and VNTR∆ cell lines 12 samples shares dux4, rna-seq
- GSE201178 Hit-and-run silencing of endogenous DUX4 by targeting DNA hypomethylation on D4Z4 repeats in facioscapulohumeral muscular dystrophy [RNA-seq] 4 samples shares dux4, rna-seq
- GSE247721 Retrotransposons in Werner syndrome-derived macrophages trigger type I interferon-dependent inflammation in an atherosclerosis model [RTE RNA-seq] 24 samples shares retrotransposons, rna-seq
- GSE247717 Retrotransposons in Werner syndrome-derived macrophages trigger type I interferon-dependent inflammation in an atherosclerosis model [iPS macrophage RNA-seq] 20 samples shares retrotransposons, rna-seq
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.