Cooperative binding of Oct4, Sox2, and Klf4 with stage-specific transcription factors orchestrates reprogramming [RNA-seq]
RNA-seq (gene expression) · mouse · 22 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
- Mus musculus (mouse)
- Samples
- 22 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 GSE90894_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 PRJNA356298 and SRA study SRP094578. 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.
+ 22 more — browse all 22 samples with per-sample file links →
- GSE90895 Cooperative binding of Oct4, Sox2, and Klf4 with stage-specific transcription factors orchestrates reprogramming 150 samples shares oct4, sox2, klf4, stage-specific, transcription, reprogramming, orchestrates, cooperative
- GSE90893 Cooperative binding of Oct4, Sox2, and Klf4 with stage-specific transcription factors orchestrates reprogramming [ChIP-seq] 119 samples shares oct4, sox2, klf4, stage-specific, transcription, reprogramming, orchestrates, cooperative
- GSE222745 Enhanced activities of OCT4 and SOX2 facilitates epigenetic reprogramming by modulating cell cycle [scRNA-Seq] 422 samples shares oct4, sox2, reprogramming
- GSE222738 Enhanced activities of OCT4 and SOX2 facilitates epigenetic reprogramming by modulating cell cycle [RNA-Seq] 12 samples shares oct4, sox2, reprogramming
- GSE294292 Enhanced activities of OCT4 and SOX2 facilitates epigenetic reprogramming by modulating cell cycle [OSK CCC/FN RNA-seq] 4 samples shares oct4, sox2, reprogramming
- GSE222746 Enhanced activities of OCT4 and SOX2 facilitates epigenetic reprogramming by modulating cell cycle 460 samples shares oct4, sox2, reprogramming
- GSE294288 Enhanced activities of OCT4 and SOX2 facilitates epigenetic reprogramming by modulating cell cycle [OSK/OvSvK CUT&TAG] 11 samples shares oct4, sox2, reprogramming
- GSE222735 Enhanced activities of OCT4 and SOX2 facilitates epigenetic reprogramming by modulating cell cycle [ATAC-Seq] 8 samples shares oct4, sox2, reprogramming
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.