Neural zinc finger protein Myt1 drives oligodendrocyte differentiation via repressing HDAC1-mediated histone deacetylation
ChIP-seq / ATAC-seq (genome binding and open chromatin) · rat · 13 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
- Rattus norvegicus (rat)
- Samples
- 13 samples: 9 distinct titles, 2 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.
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 GSE253257_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 PRJNA1064900 and SRA study SRP483781. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 13 sample titles: 9 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.
- GSM8017006 CG4, MYT1, input
- GSM8017007 CG4, MYT1, ChIP
- GSM8017008 CG4, input
- GSM8017009 CG4, H3k9ac, ChIP
- GSM8017010 CG4, H3k27ac, ChIP
- GSM8017011 spinal cord, P0, WT, rep1
- GSM8017012 spinal cord, P0, WT, rep2
- GSM8017013 spinal cord, P0, WT, rep3
- GSM8017014 spinal cord, P0, Myt1-/-, rep1
- GSM8017015 spinal cord, P0, Myt1-/-, rep2
- GSM8017016 spinal cord, P0, Myt1-/-, rep3
- GSM8021647 spinal cord, P0, WT
- GSM8021648 spinal cord, P0, Myt1-/-
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.