MERTK inhibition for the treatment of tissue fibrosis [ATAC-seq]
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: 8 conditions, mostly in duplicateGroups 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
- Inhibition of MERTK reduces organ fibrosis in mouse models of fibrotic diseaseScience translational medicine · 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 GSE235612_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 PRJNA986552 and SRA study SRP445420. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 16 samples.
How we read this: 8 replicated groups read from 16 sample titles; they account for 16 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.
- GSM7506223 sham BDL WT1 sham BDL WT
- GSM7506224 sham BDL WT2 sham BDL WT
- GSM7506225 sham BDL KO1 sham BDL KO
- GSM7506226 sham BDL KO2 sham BDL KO
- GSM7506227 BDL WT1 BDL WT
- GSM7506228 BDL WT2 BDL WT
- GSM7506229 BDL KO1 BDL KO
- GSM7506230 BDL KO2 BDL KO
- GSM7506231 sham UUO WT1 sham UUO WT
- GSM7506232 sham UUO WT2 sham UUO WT
- GSM7506233 sham UUO KO1 sham UUO KO
- GSM7506234 sham UUO KO2 sham UUO KO
- GSM7506235 UUO WT1 UUO WT
- GSM7506236 UUO WT2 UUO WT
- GSM7506237 UUO KO1 UUO KO
- GSM7506238 UUO KO2 UUO KO
- GSE328495 Gene expression + ATAC profiling of trisomic hippocampal neurons upon SAHA treatment [ATAC-seq] 16 samples shares treatment, atac-seq
- GSE268791 TGF-b/Smad3 inhibition synergizes with PPARg agonism to reduce fibrosis and enhance functional beige adipogenesis 18 samples shares inhibition, fibrosis
- GSE319820 Efficient in vivo pharmacological inhibition of ∆FOSB with YL-0441 in brain 38 samples shares inhibition
- GSE325502 Gene expression profile for Gpt2 WT and Gpt2 KO mouse brain tissues with vehicle or dm-αKG treatment 36 samples shares treatment
- GSE281151 Transient histone deacetylase inhibition induces cellular memory of gene expression and three-dimensional genome folding 259 samples shares inhibition
- GSE318028 Pharmacological inhibition of FKBP51 mitigates early life adversity-induced social deficits 246 samples shares inhibition
- GSE332646 Bulk RNA-seq of juvenile mouse liver following NDMA or saline treatment in WT and Mgmt-/- genotypes across multiple timepoints 214 samples shares treatment
- GSE314584 Toll-Like-Receptor 5 Reduces Lung Dysbiosis and Protects Against Pulmonary Fibrosis 124 samples shares fibrosis
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.