Genome binding/occupancy profiling of PHF23 and changes in H3K27ac based on the presence of PHF23
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 14 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
- Homo sapiens (human)
- Samples
- 14 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
- Dual mechanism of autophagy gene repression by PHF23 and therapeutic potential of its inhibition in protein aggregation disordersNucleic acids research · 2025
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 GSE300094_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 PRJNA1279020 and SRA study SRP593048. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 14 samples.
How we read this: 6 replicated groups read from 14 sample titles; they account for 14 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.
- GSM9053652 input, rep1 input,
- GSM9053653 input, rep2 input,
- GSM9053654 input, rep3 input,
- GSM9053655 PHF23 ChIP-seq, rep1 PHF23 ChIP-seq,
- GSM9053656 PHF23 ChIP-seq, rep2 PHF23 ChIP-seq,
- GSM9053657 PHF23 ChIP-seq, rep3 PHF23 ChIP-seq,
- GSM9053658 PHF23 WT HeLa, input, rep1 PHF23 WT HeLa, input,
- GSM9053659 PHF23 WT HeLa, input, rep2 PHF23 WT HeLa, input,
- GSM9053660 PHF23 KO HeLa, input, rep1 PHF23 KO HeLa, input,
- GSM9053661 PHF23 KO HeLa, input, rep2 PHF23 KO HeLa, input,
- GSM9053662 PHF23 WT HeLa, H3K27Ac ChIP-seq, rep1 PHF23 WT HeLa, H3K27Ac …
- GSM9053663 PHF23 WT HeLa, H3K27Ac ChIP-seq, rep2 PHF23 WT HeLa, H3K27Ac …
- GSM9053664 PHF23 KO HeLa, H3K27Ac ChIP-seq, rep1 PHF23 KO HeLa, H3K27Ac …
- GSM9053665 PHF23 KO HeLa, H3K27Ac ChIP-seq, rep2 PHF23 KO HeLa, H3K27Ac …
- GSE275303 Identifying RARG fusions or PML-RARA binding genes or analysis the epigenetic changes (H3K27ac, H3K4me1, and H3K4me3) in hCD34+ cells overexpressing CPSF6::RARG and NUP98::RARG. 34 samples shares h3k27ac, binding, changes
- GSE308264 Genome-wide profiling of histone modification H3K27ac and CTCF transcription factor binding in Rett syndrome iPS cells 24 samples shares h3k27ac, binding
- GSE246314 Genome-wide profiling of histone modification H3K27ac and CTCF transcription factor binding following VPA treatment in HEK293 cells 18 samples shares h3k27ac, binding
- GSE244630 Global mapping of H3K27ac and RPB1 occupancy upon WNK463 treatment 12 samples shares h3k27ac, occupancy
- GSE315129 ChIP-seq analysis of H3K27ac changes in pancreatic cancer cells treated with EZH2 and KRAS inhibitors 8 samples shares h3k27ac, changes
- GSE291713 Genome-binding/occupancy profiling of TNKS/PARP-inhibitor Regulated Naïve (TIRN) cells. 35 samples shares occupancy, binding
- GSE186309 Genome-wide changes in RNAPII occupancy and phosphorylation in response to CDK12/13 inhibition in gliomas 14 samples shares occupancy, changes
- GSE186311 Genome-wide changes in RNAPII occupancy, RNAPII phosphorylation, and transcription in response to CDK12/13 inhibition in gliomas 20 samples shares occupancy, changes
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.