Uncovering Critical Lysines in Mammalian Histone H3 with High-Throughput CRISPR Prime Editing [CUT&Tag]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 26 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
- 26 samples: 10 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.
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 GSE319420_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 PRJNA1423263 and SRA study SRP676849. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 26 samples.
How we read this: 10 replicated groups read from 26 sample titles; they account for 26 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.
- GSM9517610 CnT_H3K36me3_K36K_1 CnT_H3K36me3_K36K
- GSM9517611 CnT_H3K36me3_K36K_2 CnT_H3K36me3_K36K
- GSM9517612 CnT_H3K36me3_K36R_1 CnT_H3K36me3_K36
- GSM9517613 CnT_H3K36me3_K36R_2 CnT_H3K36me3_K36
- GSM9517614 K27me3_H3K27K_10_1 K27me3_H3K27K_10
- GSM9517615 K27me3_H3K27K_10_2 K27me3_H3K27K_10
- GSM9517616 K27me3_H3K27R_7_1 K27me3_H3K27R_7
- GSM9517617 K27me3_H3K27R_7_2 K27me3_H3K27R_7
- GSM9517618 CnT_H3K18ac_H312K18K_1 CnT_H3K18ac_H312K18K
- GSM9517619 CnT_H3K18ac_H312K18K_2 CnT_H3K18ac_H312K18K
- GSM9517620 CnT_H3K18ac_H312K18K_3 CnT_H3K18ac_H312K18K
- GSM9517621 CnT_H3K18ac_H312K18R_1 CnT_H3K18ac_H312K18
- GSM9517622 CnT_H3K18ac_H312K18R_2 CnT_H3K18ac_H312K18
- GSM9517623 CnT_H3K18ac_H312K18R_3 CnT_H3K18ac_H312K18
- GSM9517624 CnT_H3K18ac_H3123K18R_1 CnT_H3K18ac_H3123K18
- GSM9517625 CnT_H3K18ac_H3123K18R_2 CnT_H3K18ac_H3123K18
- GSM9517626 CnT_H3K18ac_H3123K18R_3 CnT_H3K18ac_H3123K18
- GSM9517627 CnT_H33_H312K18K_1 CnT_H33_H312K18K
- GSM9517628 CnT_H33_H312K18K_2 CnT_H33_H312K18K
- GSM9517629 CnT_H33_H312K18K_3 CnT_H33_H312K18K
- GSM9517630 CnT_H33_H312K18R_1 CnT_H33_H312K18
- GSM9517631 CnT_H33_H312K18R_2 CnT_H33_H312K18
- GSM9517632 CnT_H33_H312K18R_3 CnT_H33_H312K18
- GSM9517633 CnT_H33_H3123K18R_1 CnT_H33_H3123K18
- GSM9517634 CnT_H33_H3123K18R_2 CnT_H33_H3123K18
- GSM9517635 CnT_H33_H3123K18R_3 CnT_H33_H3123K18
- GSE294521 Transcriptional remodeling by OTX2 directs specification and patterning of mammalian definitive endoderm [CUTnTAG] 34 samples shares cut, mammalian
- GSE281926 Classes of Lamin-Associated Domains are Defined by Distinct Patterns of Repressive Histone Methylation [CUT&Tag] 18 samples shares cut, histone
- GSE291663 Lactate and histone H3K18 lactylation are associated with metabolic control of gene expression in the retina [explant_CUT&Tag] 10 samples shares cut, histone
- GSE255571 Chromatin remodeler CHD7 regulates neurogenic gene expression via controlling chromatin accessibility and modifications of histone marks H3K27me3 and H3K4me3 [Mouse CUT&Tag] 10 samples shares cut, histone
- GSE290849 Acute intervention reveals critical roles of BAF, KMT2D and p300 in MyoD binding on enhancers 143 samples shares cut, critical
- 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
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.