m6Am sequesters PCF11 to promote full-length transcription [ChIP-Seq]
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: 14 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
- m(6)Am sequesters PCF11 to suppress premature termination and drive neuroblastoma differentiationMolecular cell · 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 GSE233877_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 PRJNA978490 and SRA study SRP440639. 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 14 sample titles: 14 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.
- GSM7438397 WT HEK293T, PCF11
- GSM7438398 WT HEK293T, Input
- GSM7438399 Pcif1-KO HEK293T, PCF11
- GSM7438400 Pcif1-KO HEK293T, Input
- GSM7921179 WT HEK293T, S2P
- GSM7921180 Pcif1-KO HEK293T, S2P
- GSM7921181 WT+siScram HEK293T, Input
- GSM7921182 Pcif1-KO+siScram HEK293T, Input
- GSM7921183 WT+siPcf11 HEK293T, Input
- GSM7921184 Pcif1-KO+siPcf11 HEK293T, Input
- GSM7921185 WT+siScram HEK293T, T4P
- GSM7921186 Pcif1-KO+siScram HEK293T, T4P
- GSM7921187 WT+siPcf11 HEK293T, T4P
- GSM7921188 Pcif1-KO+siPcf11 HEK293T, T4P
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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.