Paternal obesity-induced changes in sperm chromatin accessibility and have mild effect on offspring metabolic health
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 10 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
- 10 samples: 6 × Sperm, Chow Diet, vs 4 × Sperm, Western Diet,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.
- Paper
- Paternal obesity induces changes in sperm chromatin accessibility and has a mild effect on offspring metabolic healthHeliyon · 2024
Read the full summary ↓
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 GSE263011_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 PRJNA1095448 and SRA study SRP499317. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 10 samples.
How we read this: 2 replicated groups read from 10 sample titles; they account for 10 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.
- GSM8183027 Sperm, Chow Diet, Rep1 Sperm, Chow Diet,
- GSM8183028 Sperm, Chow Diet, Rep2 Sperm, Chow Diet,
- GSM8183029 Sperm, Chow Diet, Rep3 Sperm, Chow Diet,
- GSM8183030 Sperm, Chow Diet, Rep4 Sperm, Chow Diet,
- GSM8183031 Sperm, Chow Diet, Rep5 Sperm, Chow Diet,
- GSM8183032 Sperm, Chow Diet, Rep6 Sperm, Chow Diet,
- GSM8183033 Sperm, Western Diet, Rep1 Sperm, Western Diet,
- GSM8183034 Sperm, Western Diet, Rep2 Sperm, Western Diet,
- GSM8183035 Sperm, Western Diet, Rep3 Sperm, Western Diet,
- GSM8183036 Sperm, Western Diet, Rep4 Sperm, Western Diet,
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- GSE216371 A single-cell atlas of chromatin accessibility in mouse organogenesis 68 samples shares accessibility, chromatin
- GSE264229 Mapping the male mouse chromatin accessibility landscape by UUATAC-seq 33 samples shares accessibility, chromatin
- GSE246986 Ki67-mediated chromatin accessibility impedes B-cell antigen-receptor gene rearrangement 24 samples shares accessibility, chromatin
- GSE249077 Mapping the female mouse chromatin accessibility landscape by UUATAC-seq 23 samples shares accessibility, chromatin
- GSE255571 Chromatin remodeler CHD7 regulates neurogenic gene expression via controlling chromatin accessibility and modifications of histone marks H3K27me3 and H3K4me3 [Mouse CUT&Tag] 10 samples shares accessibility, chromatin
- GSE342565 Chromatin accessibility profiling of high endothelial cells (HECs) from mouse peripheral lymph node and Peyer's patch by ATAC-seq 2 samples shares accessibility, chromatin
- GSE283483 Novel environment exposure drives temporally defined and region-specific chromatin accessibility and gene expression programs in the hippocampus 160 samples shares accessibility, chromatin
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.