UNVEILING THE MIXL1 CORE GENE REGULATORY NETWORK FOR CELL FATE DECISION DURING MOUSE GASTRULATION
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 16 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
- 16 samples: 14 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 GSE161242_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 PRJNA676018 and SRA study SRP291970. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 16 sample titles: 14 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.
- GSM4890904 Mixl1 KO rep 1 ATAC-seq
- GSM4890905 Mixl1 KO rep 2 ATAC-seq
- GSM4890906 Mixl1 KO rep 3 ATAC-seq
- GSM4890907 Mixl1 induced D1Dox rep 1 ATAC-seq
- GSM4890908 Mixl1 induced D1Dox rep 2 ATAC-seq
- GSM4890909 Mixl1 induced D1Dox rep 3 ATAC-seq
- GSM4890910 Mixl1 D1Dox - FLAG-Mixl1 ChIP rep 1
- GSM4890911 Mixl1 D1Dox - FLAG-Mixl1 ChIP rep 2
- GSM4890912 Mixl1 D1Dox - Input rep 1
- GSM4890913 Mixl1 D1Dox - Input rep 2
- GSM4890914 Mixl1 KO rep 1 RNA-seq
- GSM4890915 Mixl1 KO rep 2 RNA-seq
- GSM4890916 Mixl1 KO rep 3 RNA-seq
- GSM4890917 Mixl1 induced D1Dox rep 1 RNA-seq
- GSM4890918 Mixl1 induced D1Dox rep 2 RNA-seq
- GSM4890919 Mixl1 induced D1Dox rep 3 RNA-seq
- GSE290574 Gene Regulatory Networks Orchestrating Oocyte Fate Bifurcation in Primordial Follicles Revealed by Single-Cell Transcriptomics 386 samples shares network, fate, regulatory
- GSE282841 N6-methyladenosine modulate second cell fate decision by enhancing mRNA stability of pivotal transcription factors during primitive endoderm development 160 samples shares decision, fate
- GSE283382 N6-methyladenosine modulate second cell fate decision by enhancing mRNA stability of pivotal transcription factors during primitive endoderm development [TBLC_RNAseq] 98 samples shares decision, fate
- GSE286046 Asymmetric Histone Inheritance Regulates Differential Transcription Re-initiation and Cell Fate Decisions in Mouse Olfactory Horizontal Basal Cells 96 samples shares decision, fate
- GSE276270 NOTCH-driven oscillations control cell fate decisions during intestinal homeostasis 36 samples shares decision, fate
- GSE317231 Bcl11a orchestrates multilineage integrity in aging hematopoiesis by regulating multipotent progenitor fate decisions 30 samples shares decision, fate
- GSE316942 Bcl11a orchestrates multilineage integrity in aging hematopoiesis by regulating multipotent progenitor fate decisions [CUT&Tag] 16 samples shares decision, fate
- GSE302791 Targeted CRISPR-Cas9 screening identifies core transcription factors controlling murine haemato-endothelial fate commitment [RNA-seq] 12 samples shares core, fate
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.