Maternal high-fat diet alters Tet-mediated epigenetic regulation during heart development [ATAC-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: 3 × Normal Diet, No Vitamin C, vs 3 × Normal Diet, Vitamin C, vs 3 × High Fat Diet, No Vitamin C, vs 3 × High Fat Diet, Vitamin C,Groups 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 GSE271883_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 PRJNA1133796 and SRA study SRP518933. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 replicated groups read from 12 sample titles; they account for 12 of them. 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.
- GSM8387525 Normal Diet, No Vitamin C, replicate 1 Normal Diet, No Vitamin…
- GSM8387526 Normal Diet, No Vitamin C, replicate 2 Normal Diet, No Vitamin…
- GSM8387527 Normal Diet, No Vitamin C, replicate 3 Normal Diet, No Vitamin…
- GSM8387528 Normal Diet, Vitamin C, replicate 1 Normal Diet, Vitamin C,
- GSM8387529 Normal Diet, Vitamin C, replicate 2 Normal Diet, Vitamin C,
- GSM8387530 Normal Diet, Vitamin C, replicate 3 Normal Diet, Vitamin C,
- GSM8387531 High Fat Diet, No Vitamin C, replicate 1 High Fat Diet, No Vitam…
- GSM8387532 High Fat Diet, No Vitamin C, replicate 2 High Fat Diet, No Vitam…
- GSM8387533 High Fat Diet, No Vitamin C, replicate 3 High Fat Diet, No Vitam…
- GSM8387534 High Fat Diet, Vitamin C, replicate 1 High Fat Diet, Vitamin …
- GSM8387535 High Fat Diet, Vitamin C, replicate 2 High Fat Diet, Vitamin …
- GSM8387536 High Fat Diet, Vitamin C, replicate 3 High Fat Diet, Vitamin …
- GSE267727 Transcriptome profiling of non-islet metabolic tissues in ~500 DO mouse liver, adipose, heart, and skeletal muscle tissue from mice fed high-fat, high-sugar diet [heart] 482 samples shares high-fat, heart, diet
- GSE266918 RNA-seq expression analysis of liver, adipose, skeletal muscle, heart, and pancreatic islets from DO founder strain mice fed high-fat, high-sugar diet. [heart] 63 samples shares high-fat, heart, diet
- GSE266923 RNA-seq expression analysis of liver, adipose, skeletal muscle, heart, and pancreatic islets from DO founder strain mice fed high-fat, high-sugar diet. [liver] 61 samples shares high-fat, heart, diet
- GSE266920 RNA-seq expression analysis of liver, adipose, skeletal muscle, heart, and pancreatic islets from DO founder strain mice fed high-fat, high-sugar diet. [Adipose] 61 samples shares high-fat, heart, diet
- GSE298001 Stage-specific Epigenetic Priming Amplifies Gene Activation During Lineage Commitment [ATAC-Seq] 36 samples shares epigenetic, atac-seq
- GSE271884 GFI1-driven transcriptional and epigenetic programs maintain memory CD8+ T cell persistence [ATAC-seq]. 30 samples shares epigenetic, atac-seq
- GSE286574 Intrauterine hyperglycemia impairs primordial germ cell development and fertility by sex-specific epigenetic reprogramming interference in mice offspring [ATAC-seq] 30 samples shares epigenetic, atac-seq
- GSE236575 Adipose tissue retains an epigenetic memory of obesity after weight loss [ATAC-seq] 22 samples shares epigenetic, atac-seq
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.