PHF6 cooperates with SWI/SNF complexes to facilitate transcriptional progression
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 137 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
- 137 samples: 23 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
- PHF6 cooperates with SWI/SNF complexes to facilitate transcriptional progressionNature communications · 2024
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 GSE180487_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 PRJNA748399 and SRA study SRP512437. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 70 samples.
How we read this: 23 replicated groups read from 137 sample titles; they account for 70 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.
- GSM5463686 shCTRL_1 shCTRL
- GSM5463687 shCTRL_2 shCTRL
- GSM5463688 shPHF6_1 shPHF6
- GSM5463689 shPHF6_2 shPHF6
- GSM5463690 shCTRL_3 shCTRL
- GSM5463691 shCTRL_4 shCTRL
- GSM5463692 shPHF6_3 shPHF6
- GSM5463693 shPHF6_4 shPHF6
- GSM5463694 shPHF6_5 shPHF6
- GSM5463695 shCTRL_5 shCTRL
- GSM5463696 shCTRL_6 shCTRL
- GSM5463697 shCTRL_7 shCTRL
- GSM5463698 shPHF6_6 shPHF6
- GSM5463699 shPHF6_7 shPHF6
- GSM5463700 shPHF6_8 shPHF6
- GSM5463701 shCTRL_8 shCTRL
- GSM5463702 shCTRL_9 shCTRL
- GSM5463703 shPHF6_9 shPHF6
- GSM5463704 shPHF6_10 shPHF6
- GSM5463705 shPHF6_11 shPHF6
- GSM5463708 G401_shCTRL_POLII_1 G401_shCTRL_POLII
- GSM5463709 G401_shCTRL_POLII_2 G401_shCTRL_POLII
- GSM5463710 G401_shPHF6_POLII_1 G401_shPHF6_POLII
- GSM5463711 G401_shPHF6_POLII_2 G401_shPHF6_POLII
- GSM5463712 G401_shCTRL_input_1
- GSM5463713 G401_shPHF6_input_1
- GSM5463714 G401_shCTRL_S2P_1 G401_shCTRL_S2P
- GSM5463715 G401_shCTRL_S2P_2 G401_shCTRL_S2P
- GSM5463716 G401_shPHF6_S2P_1 G401_shPHF6_S2P
- GSM5463717 G401_shPHF6_S2P_2 G401_shPHF6_S2P
- GSM5463718 G401_shCTRL_input_Phos_1
- GSM5463719 G401_shPHF6_input_Phos_1
- GSM5463722 G401_shCTRL_S5P_1 G401_shCTRL_S5P
- GSM5463723 G401_shCTRL_S5P_2 G401_shCTRL_S5P
- GSM5463724 G401_shPHF6_S5P_1 G401_shPHF6_S5P
- GSM5463725 G401_shPHF6_S5P_2 G401_shPHF6_S5P
- GSM5463730 G401_shPHF6_H3K14ac_1 G401_shPHF6_H3K14ac
- GSM5463731 G401_shPHF6_H3K14ac_2 G401_shPHF6_H3K14ac
- GSM5463732 G401_shCTRL_H3K14ac_1 G401_shCTRL_H3K14ac
- GSM5463733 G401_shCTRL_H3K14ac_2 G401_shCTRL_H3K14ac
+ 97 more — browse all 137 samples with per-sample file links →
- GSE270787 ZIC2 and ZIC3 promote SWI/SNF recruitment to safeguard progression towards human primed pluripotency 205 samples shares swi, snf, progression
- GSE261988 SWI/SNF is a gatekeeper of chromatin access at enhancer networks controlling triple-negative breast cancer progression [ChIP-Seq] 79 samples shares swi, snf, progression
- GSE301505 Mutual Antagonism Between PRC1 Condensates and SWI/SNF in Chromatin Regulation 210 samples shares swi, snf
- GSE328578 CBFA2T3-GLIS2 fusion-mediated mSWI/SNF chromatin remodeler disruption generates cancer-specific dependencies in AMKL 156 samples shares swi, snf
- GSE299672 PHIP suppresses NuRD to enable the growth of SWI/SNF-mutant cancers [ChIP-seq] 132 samples shares swi, snf
- GSE245249 CRISPR activation screens identify the SWI-SNF ATPases as suppressors of ferroptosis 65 samples shares swi, snf
- GSE313838 Androgen receptor-negative prostate cancer is vulnerable to SWI/SNF-targeting degrader molecules 32 samples shares swi, snf
- GSE328418 CBFA2T3-GLIS2 fusion-mediated mSWI/SNF chromatin remodeler disruption generates cancer-specific dependencies in AMKL [Cut&Tag WSU-AML] 25 samples shares swi, snf
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.