Classes of Lamin-Associated Domains are Defined by Distinct Patterns of Repressive Histone Methylation [CUT&Tag]
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: 6 conditions, mostly in triplicateGroups 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
- Distinct Classes of Lamin-Associated Domains are Defined by Differential Patterns of Repressive Histone MethylationbioRxiv : the preprint server for biology · 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 GSE281926_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 PRJNA1186190 and SRA study SRP545318. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 18 samples.
How we read this: 6 replicated groups read from 18 sample titles; they account for 18 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.
- GSM8632906 iMEF, H3K9me3, rep1 iMEF, H3K9me3,
- GSM8632907 iMEF, H3K9me3, rep2 iMEF, H3K9me3,
- GSM8632908 iMEF, H3K9me3, rep3 iMEF, H3K9me3,
- GSM8632909 iMEF, H3K9me2, rep1 iMEF, H3K9me2,
- GSM8632910 iMEF, H3K9me2, rep2 iMEF, H3K9me2,
- GSM8632911 iMEF, H3K9me2, rep3 iMEF, H3K9me2,
- GSM8632912 iMEF, H3K27me3, rep1 iMEF, H3K27me3,
- GSM8632913 iMEF, H3K27me3, rep2 iMEF, H3K27me3,
- GSM8632914 iMEF, H3K27me3, rep3 iMEF, H3K27me3,
- GSM8632915 iMEF, H3K14ac, rep1 iMEF, H3K14ac,
- GSM8632916 iMEF, H3K14ac, rep2 iMEF, H3K14ac,
- GSM8632917 iMEF, H3K14ac, rep3 iMEF, H3K14ac,
- GSM8632918 iMEF, H3K9ac, rep1 iMEF, H3K9ac,
- GSM8632919 iMEF, H3K9ac, rep2 iMEF, H3K9ac,
- GSM8632920 iMEF, H3K9ac, rep3 iMEF, H3K9ac,
- GSM8632921 iMEF, H3K27ac, rep1 iMEF, H3K27ac,
- GSM8632922 iMEF, H3K27ac, rep2 iMEF, H3K27ac,
- GSM8632923 iMEF, H3K27ac, rep3 iMEF, H3K27ac,
- GSE253201 Altered DNA methylation underlies monocyte dysregulation and immune exhaustion memory in sepsis [CUT&RUN] 18 samples shares cut, methylation
- GSE275296 H3K36 methylation regulates cell plasticity and regeneration in the intestinal epithelium [cutandtag_enzyme_profiling] 12 samples shares cut, methylation
- GSE341379 Distinct histone 3 lysine methylation states underlie tumor immune surveillance 50 samples shares methylation, distinct
- GSE304211 H4K16ac contributes to chromatin compartment reorganization during mitotic and meiotic transitions [CUTnTAG] 128 samples shares cut
- GSE297309 SKP1A-mediated degradation of PRC2 triggers activation of Polycomb-silenced gene [CUT&Tag] 108 samples shares cut
- GSE303384 Mechanism of maintenance and establishment of repression by the Mtg16 tumor suppressor [CUT&RUN, ChIP-Seq] 92 samples shares cut
- GSE325799 KMT2C and KMT2D amplify GRHL2-driven enhancer activation [CUT&Tag] 80 samples shares cut
- GSE298418 MeCP2 stabilizes the glucocorticoid system in active chromatin regions [CUT&Tag] 63 samples shares cut
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.