U4 inhibits premature cleavage and polyadenylation of pre-mRNAs [ChIP-seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 12 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
- 12 samples: 12 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
- U4 snRNP inhibits premature cleavage and polyadenylation of pre-mRNAsProceedings of the National Academy of Sciences of the United States of America · 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 GSE262384_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 PRJNA1091630 and SRA study SRP497696. 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 12 sample titles: 12 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.
- GSM8164257 input DNA, negative control, repeat 1 (ChIP-seq)
- GSM8164258 input DNA, negative control, repeat 2 (ChIP-seq)
- GSM8164259 input DNA, U4 AMO, repeat 1 (ChIP-seq)
- GSM8164260 input DNA, U4 AMO, repeat 2 (ChIP-seq)
- GSM8164261 RNAPII IP, negative control, repeat 1 (ChIP-seq)
- GSM8164262 RNAPII IP, negative control, repeat 2 (ChIP-seq)
- GSM8164263 RNAPII IP, U4 AMO, repeat 1 (ChIP-seq)
- GSM8164264 RNAPII IP, U4 AMO, repeat 2 (ChIP-seq)
- GSM8164265 input DNA, negative control, repeat 3 (ChIP-seq)
- GSM8164266 input DNA, U4 AMO, repeat 3 (ChIP-seq)
- GSM8164267 RNAPII IP, negative control, repeat 3 (ChIP-seq)
- GSM8164268 RNAPII IP, U4 AMO, repeat 3 (ChIP-seq)
- GSE295087 Dynamic Multi-omics Profiling Unveils Bimodal Epigenetic Roles of Chromatin O-GlcNAc modification in Premature Senescence Program [ChIP-seq] 48 samples shares premature, chip-seq
- GSE252391 U1 snRNP regulates alternative promoter activity by inhibiting premature polyadenylation [CUT&RUN] 24 samples shares polyadenylation, premature
- GSE262487 UBR7 in concert with EZH2 inhibits the TGF-β signalling leading to extracellular matrix remodelling [ChIP-seq] 14 samples shares inhibits, chip-seq
- GSE295432 Targeting Mediator MED23 inhibits HCC development by inhibiting compensatory proliferation and promoting ROS-mediated cell death [ChIP-seq] 12 samples shares inhibits, chip-seq
- GSE243456 Identifying human pre-mRNA cleavage and polyadenylation factors by genome-wide CRISPR screens in a dual fluorescence readthrough reporter (2) 12 samples shares polyadenylation, cleavage
- GSE252392 U1 snRNP regulates alternative promoter activity by inhibiting premature polyadenylation 47 samples shares polyadenylation, premature
- GSE243457 Identifying human pre-mRNA cleavage and polyadenylation factors by genome-wide CRISPR screens in a dual fluorescence readthrough reporter 28 samples shares polyadenylation, cleavage
- GSE287150 OTX2 inhibits human pluripotent stem cell reprogramming toward 8-cell-like and morula-like states 18 samples shares inhibits
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.