R-loop maintains the deposition of H3K36me3 to prevent invasion of H3K4me3 during SN-oocyte development [4]
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: 10 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 GSE313733_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 PRJNA1381512 and SRA study SRP655196. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 20 samples.
How we read this: 10 replicated groups read from 20 sample titles; they account for 20 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.
- GSM9373236 oeSPT6_H3K36me3_rep1 oeSPT6_H3K36me3
- GSM9373237 oeSPT6_H3K36me3_rep2 oeSPT6_H3K36me3
- GSM9373238 oeSPT6_H3K4me3_rep1 oeSPT6_H3K4me3
- GSM9373239 oeSPT6_H3K4me3_rep2 oeSPT6_H3K4me3
- GSM9373240 SN oocyte_oeSPT6_KASseq_rep1 SN oocyte_oeSPT6_KASseq
- GSM9373241 SN oocyte_oeSPT6_KASseq_rep2 SN oocyte_oeSPT6_KASseq
- GSM9373242 SN oocyte_oeRnaseh1_KASseq_rep1 SN oocyte_oeRnaseh1_KAS…
- GSM9373243 SN oocyte_oeRnaseh1_KASseq_rep2 SN oocyte_oeRnaseh1_KAS…
- GSM9373244 oeRnaseh1_Supt6_SN_SETD2_rep1 oeRnaseh1_Supt6_SN_SETD2
- GSM9373245 oeRnaseh1_Supt6_SN_SETD2_rep2 oeRnaseh1_Supt6_SN_SETD2
- GSM9373246 oeSupt6_SN_SETD2_rep1 oeSupt6_SN_SETD2
- GSM9373247 oeSupt6_SN_SETD2_rep2 oeSupt6_SN_SETD2
- GSM9373248 oemCherry_batch2_SN_rep1 oemCherry_batch2_SN
- GSM9373249 oemCherry_batch2_SN_rep2 oemCherry_batch2_SN
- GSM9373250 oeRnaseh1_wkkd_SN_rep1 oeRnaseh1_wkkd_SN
- GSM9373251 oeRnaseh1_wkkd_SN_rep2 oeRnaseh1_wkkd_SN
- GSM9373252 oeSupt6_batch2_SN_rep1 oeSupt6_batch2_SN
- GSM9373253 oeSupt6_batch2_SN_rep2 oeSupt6_batch2_SN
- GSM9373254 wt_batch2_SN_rep1 wt_batch2_SN
- GSM9373255 wt_batch2_SN_rep2 wt_batch2_SN
- GSE285321 R-loop maintains the deposition of H3K36me3 to prevent invasion of H3K4me3 during SN-oocyte development 53 samples shares h3k36me3, h3k4me3, deposition, maintains, sn-oocyte, invasion, prevent, r-loop
- GSE285237 R-loop maintains the deposition of H3K36me3 to prevent invasion of H3K4me3 during SN-oocyte development [3] 15 samples shares h3k36me3, h3k4me3, deposition, maintains, sn-oocyte, invasion, prevent, r-loop
- GSE229903 CUT&Tag analysis of H3K4me3, H3K27Ac,H2A119Ub, H3K27me3 and H3K36me3 in KPC1199 murine PDAC cell line 10 samples shares h3k36me3, h3k4me3
- GSE299728 Urolithin A maintains primordial follicle dormancy and prevents cyclophosphamide-induced follicle loss by inhibiting the PI3K/Akt signaling 12 samples shares maintains, prevent
- GSE287897 SPT6 maintains epidermal homeostasis by inhibiting an NF-κB- positive feedback loop to prevent excessive inflammation 9 samples shares maintains, prevent
- GSE242515 Broad H3K4me3 controls transcription output and timing during spermatid development 111 samples shares h3k4me3
- GSE289627 CFP1-mediated H3K4me3 broad domains control early B cell lineage fate determination 88 samples shares h3k4me3
- GSE262040 Setd2 overexpression rescues bivalent gene expression during SCNT-mediated ZGA by enhancing H3K36me3 at gene bodies and excluding H3K27me3 from promoters 88 samples shares h3k36me3
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.