Dmrt1 regulates mouse expanded potency and facilitates the breaking of embryonic lineage barrier [ChIP-Seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 12 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
- 12 samples: 12 samples, each with a distinct title — no replicated groupsGroups 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 GSE215204_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 PRJNA889343 and SRA study SRP401927. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 12 sample titles: 12 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.
- GSM6626438 2i_H3K27Ac
- GSM6626439 2i_H3K27Ac_Input
- GSM6626440 2i_H3K4Me3
- GSM6626441 2i_H3K4Me3_Input
- GSM6626442 E14_H3K27Ac
- GSM6626443 E14_H3K27Ac_Input
- GSM6626444 E14_H3K4Me3
- GSM6626445 E14_H3K4Me3_Input
- GSM6626446 EPSC_H3K27Ac
- GSM6626447 EPSC_H3K27Ac_Input
- GSM6626448 EPSC_H3K4Me3
- GSM6626449 EPSC_H3K4Me3_Input
- GSE309572 MLL2 facilitates long-range gene regulation through LINE1 elements [ChIP-Seq] 89 samples shares facilitates, chip-seq
- GSE278338 ChIP-seq to measure binding of NIPBL/MAU2, RAD21, and CTCF in mouse embryonic stem cells and neural progenitor cells 50 samples shares embryonic, chip-seq
- GSE232845 Effect of conditional triple-knockout of Jmjd2a/Kdm4a, Jmjd2b/Kdm4b and Jmjd2c/Kdm4c or overexpression of KDM4C/JMJD2C mutants with different phase separation ability on gene expression in mouse embryonic stem cells. [ChIP-Seq] 46 samples shares embryonic, chip-seq
- GSE269433 Histone Deacetylase 1 (HDAC1) maintains the transcriptome of embryonic stem cells through regulating acetylation at crucial genomic sites [ChIP-seq] 18 samples shares embryonic, chip-seq
- GSE257545 Top2a Differentially Modulates Promoter Activity in Embryonic Stem Cells via Trim28 Recruitment and PRC2 Displacement [ChIP-Seq] 16 samples shares embryonic, chip-seq
- GSE280128 The LHX1 Gene Regulatory Network Represses Pluripotency and Modulates Multiple Signaling Pathways to Specify the Embryonic Head [Embryo_ATAC-seq] 12 samples shares embryonic, potency
- GSE270036 Investigate the functions of core pluripotency transcription factors in embryonic stem cells 30 samples shares embryonic, potency
- GSE266451 Single-cell analysis of bidirectional reprogramming between early embryonic states reveals mechanisms of differential lineage plasticities [RNA-Seq] 21 samples shares embryonic, lineage
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.