LEDGF/p75 promotes transcriptional pausing through preventing SPT5 phosphorylation
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 24 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
- 24 samples: 24 samples, each with a distinct title — no replicated groupsGroups 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
- LEDGF/p75 promotes transcriptional pausing through preventing SPT5 phosphorylationScience advances · 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 GSE250380_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 PRJNA1053782 and SRA study SRP478462. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 24 sample titles: 24 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.
- GSM7978133 ChIP-seq AFF4_HCT116_WT
- GSM7978134 ChIP-seq AFF4_HCT116_SPT5ΔPRD
- GSM7978135 ChIP-seq AFF4_HCT116_SPT5ΔPLD
- GSM7978136 ChIP-seq NELFE_HCT116
- GSM7978137 ChIP-seq NELFE_HCT116_SPT5ΔPRD
- GSM7978138 ChIP-seq NELFE_HCT116_SPT5ΔPLD
- GSM7978139 ChIP-seq Pol II_HCT116
- GSM7978140 ChIP-seq Pol II_HCT116_SPT5ΔPRD
- GSM7978141 ChIP-seq Pol II_HCT116_SPT5ΔPLD
- GSM7978142 ChIP-seq SPT5_HCT116_WT
- GSM7978143 ChIP-seq SPT5_HCT116_SPT5ΔPRD
- GSM7978144 ChIP-seq SPT5_HCT116_SPT5ΔPLD
- GSM7978145 ChIP-seq SPT5-pCTR1_HCT116_WT
- GSM7978146 ChIP-seq SPT5-pCTR1_HCT116_SPT5ΔPLD
- GSM7978147 ChIP-seq AFF4_HCT116
- GSM7978148 ChIP-seq AFF4_PSIP1ΔIBD
- GSM7978149 ChIP-seq SPT5_HCT116
- GSM7978150 ChIP-seq SPT5_PSIP1ΔIBD
- GSM7978151 ChIP-seq SPT5-pCTR1_HCT116
- GSM7978152 ChIP-seq SPT5-pCTR1_PSIP1ΔIBD
- GSM8621867 CUTTag LEDGF_HCT116_Bethyl
- GSM8621868 CUTTag LEDGF_HCT116_generated_in_house
- GSM8621869 CUTTag LEDGF_HCT116_DMSO
- GSM8621870 CUTTag LEDGF_HCT116_dTAG3h
- GSE265881 Tripartite phosphorylation of SPT5 by CDK9 times pause release and tunes elongation rate of RNA polymerase II (ChIP-Seq) 72 samples shares spt5, phosphorylation
- GSE265883 Tripartite phosphorylation of SPT5 by CDK9 times pause release and tunes elongation rate of RNA polymerase II (CUT&RUN) 68 samples shares spt5, phosphorylation
- GSE265884 Tripartite phosphorylation of SPT5 by CDK9 times pause release and tunes elongation rate of RNA polymerase II (RNA-Seq) 10 samples shares spt5, phosphorylation
- GSE200973 Tyrosine phosphorylation of CARM1 promotes its enzymatic activity and alters its target specificity 20 samples shares phosphorylation, promotes
- GSE306488 DNA-PK Mediated CRTC2 Phosphorylation Promotes CRTC2 Relocation from Transcription to Repair Complexes Enhancing NHEJ and Suppressing Abscopal Effect [CUT&Tag] 4 samples shares phosphorylation, promotes
- GSE264360 Nuclear translocation of Cx43 promotes CRC progression by CAF via activating β-catenin through TGF-β and phosphorylation 6 samples shares phosphorylation, promotes
- GSE232880 Serine/Threonine Phosphorylation of RUNX1 Promotes Megakaryocytic Fate in Megakaryocyte-Erythroid Progenitors 38 samples shares phosphorylation, promotes
- GSE232879 Serine/Threonine Phosphorylation of RUNX1 Promotes Megakaryocytic Fate in Megakaryocyte-Erythroid Progenitors (Primary Human Bulk mRNA-seq) 22 samples shares phosphorylation, promotes
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.