Induction of senescence upon loss of the Ash2l subunit of histone H3K4 methyltransferase complexes (ChIP-Seq)
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 20 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
- 20 samples: 20 samples, each with a distinct title — no replicated groupsGroups 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
- Loss of the Ash2l subunit of histone H3K4 methyltransferase complexes reduces chromatin accessibility at promotersScientific reports · 2022
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 GSE165460_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 PRJNA694649 and SRA study SRP303163. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 20 sample titles: 20 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.
- GSM5034129 ChIPSeq_H3K4me1_iMEF1_input
- GSM5034130 ChIPSeq_H3K4me1_iMEF1_WT_HOT_plus
- GSM5034131 ChIPSeq_H3K4me1_iMEF1_WT_HOT_minus
- GSM5034132 ChIPSeq_H3K4me1_iMEF1_KO_HOT_plus
- GSM5034133 ChIPSeq_H3K4me1_iMEF1_KO_HOT_minus
- GSM5034134 ChIPSeq_H3K4me1_iMEF2_input
- GSM5034135 ChIPSeq_H3K4me1_iMEF2_WT_HOT_plus
- GSM5034136 ChIPSeq_H3K4me1_iMEF2_WT_HOT_minus
- GSM5034137 ChIPSeq_H3K4me1_iMEF2_KO_HOT_plus
- GSM5034138 ChIPSeq_H3K4me1_iMEF2_KO_HOT_minus
- GSM5034139 ChIPSeq_H3K4me3_iMEF1_input
- GSM5034140 ChIPSeq_H3K4me3_iMEF1_WT_HOT_plus
- GSM5034141 ChIPSeq_H3K4me3_iMEF1_WT_HOT_minus
- GSM5034142 ChIPSeq_H3K4me3_iMEF1_KO_HOT_plus
- GSM5034143 ChIPSeq_H3K4me3_iMEF1_KO_HOT_minus
- GSM5034144 ChIPSeq_H3K4me3_iMEF2_input
- GSM5034145 ChIPSeq_H3K4me3_iMEF2_WT_HOT_plus
- GSM5034146 ChIPSeq_H3K4me3_iMEF2_WT_HOT_minus
- GSM5034147 ChIPSeq_H3K4me3_iMEF2_KO_HOT_plus
- GSM5034148 ChIPSeq_H3K4me3_iMEF2_KO_HOT_minus
- GSE261412 Acute hormonal signaling-induced 3D chromatin loop reorganization controls adipocyte thermogenesis [ChIP-Seq mouse, H3K27ac, H3K4me3, H2AZ] 24 samples shares h3k4, chip-seq
- GSE281043 The genome wide mapping of H3K4kme3, H3K27ac and H3K27me3 in Ctcf f/f and Ctcf Δ/Δ CALM-AF10 AML cells [ChiP-seq] 16 samples shares h3k4, chip-seq
- GSE289599 CFP1-mediated H3K4me3 broad domains control early B cell lineage fate determination [ChIP-Seq] 13 samples shares h3k4, chip-seq
- GSE270213 The H3K9me3 heterochromatin integrity and function are sustained by H3K9me3 methyltransferases-HP1 dependencies [H4K20me3 ChIP-seq] 12 samples shares methyltransferase, chip-seq
- GSE301939 Histone methyltransferase DOT1L affects the development of dendritic cell subsets [ChIP-Seq] 12 samples shares methyltransferase, chip-seq
- GSE73952 Distinct features in establishing H3K4me3 and H3K27me3 in pre-implantation embryos 67 samples shares h3k4
- GSE336091 KMT2C catalytic activity regulates enhancer H3K4me1 and synaptic gene expression in cortical excitatory neurons [CUT&Tag] 48 samples shares h3k4
- GSE190102 Ageing-Related Changes to H3K4me3, H3K27ac and H3K27me3 in Purified Mouse Neurons 43 samples shares h3k4
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.