Deletion of SWI/SNF ATPase activity in hepatocytes of adult liver disrupts circadian gene expression and central liver functions [ChIPseq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 18 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
- 18 samples: 7 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.
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 GSE266937_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 PRJNA1108747 and SRA study SRP506237. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 14 samples.
How we read this: 7 replicated groups read from 18 sample titles; they account for 14 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.
- GSM8257089 liver, WT, ZT2, BRG1, ChIP, rep1 liver, WT, ZT2, BRG1, C…
- GSM8257090 liver, WT, ZT2, BRG1, ChIP, rep2 liver, WT, ZT2, BRG1, C…
- GSM8257091 liver, WT, ZT6, BRG1, ChIP, rep1 liver, WT, ZT6, BRG1, C…
- GSM8257092 liver, WT, ZT6, BRG1, ChIP, rep2 liver, WT, ZT6, BRG1, C…
- GSM8257093 liver, WT, ZT10, BRG1, ChIP, rep1 liver, WT, ZT10, BRG1, …
- GSM8257094 liver, WT, ZT10, BRG1, ChIP, rep2 liver, WT, ZT10, BRG1, …
- GSM8257095 liver, WT, ZT14, BRG1, ChIP, rep1 liver, WT, ZT14, BRG1, …
- GSM8257096 liver, WT, ZT14, BRG1, ChIP, rep2 liver, WT, ZT14, BRG1, …
- GSM8257097 liver, WT, ZT18, BRG1, ChIP, rep1 liver, WT, ZT18, BRG1, …
- GSM8257098 liver, WT, ZT18, BRG1, ChIP, rep2 liver, WT, ZT18, BRG1, …
- GSM8257099 liver, WT, ZT22, BRG1, ChIP, rep1 liver, WT, ZT22, BRG1, …
- GSM8257100 liver, WT, ZT22, BRG1, ChIP, rep2 liver, WT, ZT22, BRG1, …
- GSM8257101 liver, WT, Input, rep1 liver, WT, Input,
- GSM8257102 liver, WT, Input, rep2 liver, WT, Input,
- GSM8257103 liver, BRMKO, ZT10, BRG1, ChIP
- GSM8257104 liver, BRMKO, ZT10, Input
- GSM8257105 liver, dKO, ZT10, BRG1, ChIP
- GSM8257106 liver, dKO, ZT10, Input
- GSE249211 SWI/SNF-dependent genes are defined by their chromatin landscape [ChIP-seq_2] 24 samples shares swi, snf
- GSE274357 Precise modulation of mSWI/SNF identified dosage-sensitive chromatin regulation [ATAC-Seq] 14 samples shares swi, snf
- GSE242803 SWI/SNF directed epigenetic and transcriptional response during macrophage inflammatory activation. 134 samples shares swi, snf
- GSE272849 EOMES establishes mesoderm and endoderm differentiation potential through SWI/SNF-mediated global enhancer remodeling 119 samples shares swi, snf
- GSE226954 SWI/SNF-dependent genes are defined by their chromatin landscape 61 samples shares swi, snf
- GSE268206 CRISPR screen decodes SWI/SNF chromatin remodeling complex assembly 56 samples shares swi, snf
- GSE253379 Differential roles of copper-binding transcription factors and the subfamilies of the SWI/SNF complex in the transcriptional regulation of the skeletal muscle lineage 36 samples shares swi, snf
- GSE248369 The Swi/Snf chromatin remodeling complex regulates pancreatic endocrine cell expansion and differentiation in vivo 10 samples shares swi, snf
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.