The TFIID subunit Taf13 is dispensable for RNA polymerase II transcription, but essential for early embryogenesis
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 24 samples
- What it is
- ChIP-seq / ATAC-seq (genome binding and open chromatin)Where proteins bind the genome, or which regions are open and active.
- Organism
- Mus musculus (mouse)
- Samples
- 24 samples: 19 distinct titles, 3 of them repeatedGroups 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
- The transcription factor IID subunit Taf13 is dispensable for TATA binding protein promoter recruitment and RNA polymerase II transcriptioniScience · 2025
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 GSE254025_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: Look for peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.
Also filed as BioProject PRJNA1068141 and SRA study SRP485453. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 24 sample titles: 19 distinct titles with little repetition. 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.
- GSM8031899 HA in 3XHA-Taf13 expressing cells
- GSM8031900 HA in control wt cells
- GSM8031901 H3K4Me3 in 3XHA-Taf13 expressing cells
- GSM8031902 H3K4Me3 in KO
- GSM8031903 H3K27ac in 3XHA-Taf13 expressing cells
- GSM8031904 H3K27ac in KO
- GSM8031905 TBP in 3XHA-Taf13 expressing cells
- GSM8031906 TBP in KO
- GSM8031907 Taf1 in Taf13 expressing cells
- GSM8031908 Taf1 in KO
- GSM8031909 PolII in 3XHA-Taf13 expressing cells
- GSM8031910 PolII in KO
- GSM8031911 3XHA-Taf13 expressing cells 1
- GSM8031912 3XHA-Taf13 expressing cells 2
- GSM8031913 3XHA-Taf13 expressing cells 3
- GSM8031914 KO1
- GSM8031915 KO2
- GSM8031916 KO3
- GSM8634676 TBP in Taf13 expressing
- GSM8634677 Taf4 in Taf13 expressing
- GSM8634678 TBP in KO.
- GSM8634679 Taf4 in KO
- GSM8634680 Xpb in Taf13 expressing
- GSM8634681 Xpb in KO
- GSE274493 The remodeling of bivalent chromatin is essential for mouse peri-implantation embryogenesis [CUT&Tag] 46 samples shares embryogenesis, essential
- GSE248586 A conserved epithelial wound-like transcriptional program driven by FOSL1 underlies malignant progression of pancreatic ductal adenocarcinoma 57 samples shares transcription
- GSE272888 Dynamic transcriptional and epigenetic changes define postnatal tendon growth 54 samples shares transcription
- GSE243165 Signal-responsive transcription factors cooperate to establish alveolar macrophage identity 42 samples shares transcription
- GSE266584 Epigenetic and transcriptional regulation of dendritic cell development and anti-tumor function by HDAC1 34 samples shares transcription
- GSE281941 Klf5 functions as a multi-lineage reprogramming transcription factor 30 samples shares transcription
- GSE157232 The CD8+ T cell tolerance checkpoint triggers a transcriptionally and epigenetically distinct differentiation state defined by protein translation defects 30 samples shares transcription
- GSE279796 Setdb1 regulates proper differentiation of adult intestinal stem cells via restraining permissive chromatin structure and transcriptional variability 18 samples shares transcription
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.