NKAPL binding sites in mouse testis and the genome-wide occupancy of the SOX30/HDAC3 protein complex and RNA Pol II in the absence of NKAPL
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: 6 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.
- Paper
- NKAPL facilitates transcription pause-release and bridges elongation to initiation during meiosis exitNature communications · 2025
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 GSE232398_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 PRJNA971928 and SRA study SRP437436. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 6 replicated groups read from 20 sample titles; they account for 12 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.
- GSM7329933 NKAPL_WT
- GSM7329934 HDAC3_WT_rep1 HDAC3_WT
- GSM7329935 HDAC3_WT_rep2 HDAC3_WT
- GSM7329936 SOX30_WT_rep1 SOX30_WT
- GSM7329937 SOX30_WT_rep2 SOX30_WT
- GSM7329938 Pol ll_WT
- GSM7329939 WT_input
- GSM7329940 KO_HDAC3
- GSM7329941 KO_SOX30
- GSM7329942 KO_Pol ll
- GSM7329943 KO_input
- GSM8618760 WT_PS_Pol ll_rep1 WT_PS_Pol ll
- GSM8618761 WT_PS_Pol ll_rep2 WT_PS_Pol ll
- GSM8618762 WT_RS_Pol ll_rep1 WT_RS_Pol ll
- GSM8618763 WT_RS_Pol ll_rep2 WT_RS_Pol ll
- GSM8618764 KO_PS_Pol ll_rep1 KO_PS_Pol ll
- GSM8618765 KO_PS_Pol ll_rep2 KO_PS_Pol ll
- GSM8618766 KO_RS_Pol ll_rep1 KO_RS_Pol ll
- GSM8618767 KO_RS_Pol ll_rep2 KO_RS_Pol ll
- GSM8618768 WT_NKAPL
- GSE326899 Genome-wide binding of ZFPOBI1/TRIM28 and linked H3K9me3 dynamics 20 samples shares genome-wide, binding
- GSE230527 Genome-wide profiling of Kdm2a binding and H3K36me2 of hypoxia-cultured B cells derived from miR-155-sufficient and -deficient mice [ChIP-seq] 18 samples shares genome-wide, binding
- GSE55697 Deletion of RING1A/B and loss of H2AK119ub1 affects PRC2 occupancy and H3K27me3 genome-wide 18 samples shares genome-wide, occupancy
- GSE237640 Identification of the genome-wide binding sites of OCT2 in Reg-1fl/fl- and Reg-1ΔNK-NK cells. [ChIP-Seq] 12 samples shares genome-wide, binding
- GSE261197 Decoding genome-wide DNA binding sites for AR and ERRα in mouse primary hepatocytes 10 samples shares genome-wide, binding
- GSE318298 Genome-wide EGR1 chromatin occupancy in wild-type C57BL/6J bone-marrow–derived macrophages measured by CUT-taq 4 samples shares genome-wide, occupancy
- GSE26345 Diurnal changes of HDAC3, Rev-erbα, NCoR and Pol II recruitment to the mouse liver genome and of H3K9Ac 18 samples shares hdac3
- GSE220041 Arresting the Bad Seed: HDAC3 Regulates Proliferation of Different Microglia after Ischemic Stroke [ATAC-seq] 10 samples shares hdac3
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.