Enhanced Phase Separation Mediated Oncogenicity [ChIP-Seq experiment]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 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
- Homo sapiens (human)
- Samples
- 18 samples: 16 distinct titles, 2 of them repeatedGroups 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
- Exclusion of HDAC1/2 complexes by oncogenic nuclear condensatesMolecular cancer · 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 GSE263429_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 PRJNA1097529 and SRA study SRP500297. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 18 sample titles: 16 distinct titles with little repetition. 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.
- GSM8191524 Ctr-BMI1
- GSM8191525 Ctr-CTCF
- GSM8191526 Ctr-H3K27me3
- GSM8191527 Ctr-RAD21
- GSM8191528 Ctr-SMC3
- GSM8191529 Ctr-SUZ12
- GSM8191530 Ctr-IMR90-H2AK119ub
- GSM8191531 Ctr-HDAC1
- GSM8191532 Ctr-HDAC2
- GSM8191533 SS-BMI1
- GSM8191534 SS-CTCF
- GSM8191535 SS-H3K27me3
- GSM8191536 SS-RAD21
- GSM8191537 SS-SMC3
- GSM8191538 SS-SUZ12
- GSM8191539 SS-IMR90-H2AK119ub
- GSM8191540 SS-HDAC1
- GSM8191541 SS-HDAC2
- GSE211456 Enhanced Phase Separation Mediated Oncogenicity 26 samples shares oncogenicity, separation, enhanced, mediated, phase
- GSE253743 Phase separation of phospho-HDAC6 drives aberrant chromatin architecture in triple-negative breast cancer [ChIP-seq, Cut&Tag, ATAC-seq] 41 samples shares separation, chip-seq, phase
- GSE325862 BMAL1 regulates circadian rhythms via phase separation–mediated transcriptional hub formation 36 samples shares separation, mediated, phase
- GSE303850 Super-enhancer-driven core transcription factor FOXP1 delays endothelial cell senescence via phase separation-mediated SESN3 activation_cuttag seq 12 samples shares separation, mediated, phase
- GSE293829 Enhanced phase separation of BRD4S derived from CDK12 inactivation-induced IPA drives cancer metastasis 4 samples shares separation, enhanced, phase
- GSE243047 METTL3-mediated chromatin contacts promote phase separation during senescence. 22 samples shares separation, mediated, phase
- GSE212374 MED26-mediated phase separation regulates erythropoiesis by tuning transcription pausing 19 samples shares separation, mediated, phase
- GSE314081 Histone Variant H1.0 Regulates Terminal Erythroid Differentiation via Phase Separation-Mediated Chromatin Organization 18 samples shares separation, mediated, phase
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.