Liver-specific matrin-3 knockout regulates hepatic transcriptome and chromatin accessibility in mice
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 42 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
- 42 samples: 38 distinct titles, 4 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.
- Paper
- Liver matrin-3 protects mice against hepatic steatosis and stress response via constitutive androstane receptorMolecular metabolism · 2024
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 GSE246707_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 PRJNA1034149 and SRA study SRP469532. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 42 sample titles: 38 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.
- GSM7875033 chowFlox, female1 ATAC-seq
- GSM7875034 chowFlox, female2 ATAC-seq
- GSM7875035 chowFlox, female3 ATAC-seq
- GSM7875036 chowLKO, female4 ATAC-seq
- GSM7875037 chowLKO, female5 ATAC-seq
- GSM7875038 chowLKO, female6 ATAC-seq
- GSM7875039 HFD_flox, female1 ATAC-seq
- GSM7875040 HFD_flox, female2 ATAC-seq
- GSM7875041 HFD_flox, female3 ATAC-seq
- GSM7875042 HFD_flox, female4 ATAC-seq
- GSM7875043 HFD_LKO, female5 ATAC-seq
- GSM7875044 HFD_LKO, female6 ATAC-seq
- GSM7875045 HFD_LKO, female7 ATAC-seq
- GSM7875046 HFD_LKO, female8 ATAC-seq
- GSM7875087 HFD, floxed, male1 RNA-seq
- GSM7875088 HFD, floxed, male2 RNA-seq
- GSM7875089 HFD, floxed, male3 RNA-seq
- GSM7875090 HFD, floxed, male4 RNA-seq
- GSM7875091 HFD, LKO, male5 RNA-seq
- GSM7875092 HFD, LKO, male6 RNA-seq
- GSM7875093 HFD, LKO, male7 RNA-seq
- GSM7875094 HFD, LKO, male8 RNA-seq
- GSM7875095 HFD, floxed, female1 RNA-seq
- GSM7875096 HFD, floxed, female2 RNA-seq
- GSM7875097 HFD, floxed, female3 RNA-seq
- GSM7875098 HFD, floxed, female4 RNA-seq
- GSM7875099 HFD, LKO, female5 RNA-seq
- GSM7875100 HFD, LKO, female6 RNA-seq
- GSM7875101 HFD, LKO, female7 RNA-seq
- GSM7875102 HFD, LKO, female8 RNA-seq
- GSM8262572 female, floxed, rep1
- GSM8262573 female, floxed, rep2
- GSM8262574 female, LKO, rep1
- GSM8262575 female, LKO, rep2
- GSM8262576 male, floxed, rep1
- GSM8262577 male, floxed, rep2
- GSM8262578 male, LKO, rep1
- GSM8262579 male, LKO, rep2
- GSM8269411 scRNA_Multiome of liver nuclei from floxed mice
- GSM8269412 scATAC_Multiome of liver nuclei from floxed mice
+ 2 more — browse all 42 samples with per-sample file links →
- GSE283483 Novel environment exposure drives temporally defined and region-specific chromatin accessibility and gene expression programs in the hippocampus 160 samples shares accessibility, chromatin
- GSE309545 Inflammatory signaling differentially changes chromatin accessibility and gene expression of the PD-associated kinase LRRK2 between human and mice [multiome mouse] 64 samples shares accessibility, chromatin
- GSE240860 Hmgb2 improves astrocyte to neuron conversion by increasing the chromatin accessibility of genes associated with neuronal maturation in a proneuronal factor-dependent manner 54 samples shares accessibility, chromatin
- GSE290224 Intermittent Fasting Reprograms Chromatin Accessibility to Modulate Gene Expression in Brain and Muscle 96 samples shares accessibility, chromatin
- 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
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.