Oncofetal RNA-binding proteins IGF2BP suppress innate immune signaling pathways in leukemia stem cells [ATAC-seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 9 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
- 9 samples: 3 × ATAC-Seq, IGF2BP1 Knockout, vs 2 × ATAC-Seq, CRISPR Control, vs 2 × ATAC-Seq, IGF2BP2 Knockout, vs 2 × ATAC-Seq, IGF2BP3 Knockout,Groups 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
- Oncofetal RNA-binding proteins of IGF2BP family suppress IRF-3 and NF-kB dependent transcription downstream of cytosolic RNA sensorsbioRxiv : the preprint server for biology · 2026
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 GSE311644_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 PRJNA1370059 and SRA study SRP649272. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 7 samples read as cases, 2 as controls.
How we read this: 4 replicated groups read from 9 sample titles; they account for 9 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.
- GSM9328732 ATAC-Seq, CRISPR Control, Replicate 1 ATAC-Seq, CRISPR Contro…
- GSM9328733 ATAC-Seq, CRISPR Control, Replicate 2 ATAC-Seq, CRISPR Contro…
- GSM9328734 ATAC-Seq, IGF2BP1 Knockout, Replicate 1 ATAC-Seq, IGF2BP1 Knock…
- GSM9328735 ATAC-Seq, IGF2BP1 Knockout, Replicate 2 ATAC-Seq, IGF2BP1 Knock…
- GSM9328736 ATAC-Seq, IGF2BP1 Knockout, Replicate 3 ATAC-Seq, IGF2BP1 Knock…
- GSM9328737 ATAC-Seq, IGF2BP2 Knockout, Replicate 1 ATAC-Seq, IGF2BP2 Knock…
- GSM9328738 ATAC-Seq, IGF2BP2 Knockout, Replicate 2 ATAC-Seq, IGF2BP2 Knock…
- GSM9328739 ATAC-Seq, IGF2BP3 Knockout, Replicate 1 ATAC-Seq, IGF2BP3 Knock…
- GSM9328740 ATAC-Seq, IGF2BP3 Knockout, Replicate 2 ATAC-Seq, IGF2BP3 Knock…
- GSE311641 Oncofetal RNA-binding proteins IGF2BP suppress innate immune signaling pathways in leukemia stem cells [RNA-seq] 32 samples shares igf2bp, rna-binding, oncofetal, proteins, suppress, leukemia, innate
- GSE268946 RNA-binding proteins DND1 and NANOS3 coordinately suppress SOX4 in processing bodies for restricting the entry of germ cell lineage 36 samples shares rna-binding, proteins, suppress
- GSE290248 Large-scale tethered screen of RNA-binding proteins reveals novel regulators of poly(A) site selection 97 samples shares rna-binding, proteins
- GSE290282 Large-scale tethered screen of RNA-binding proteins reveals novel regulators of poly(A) site selection [RNA-Seq] 92 samples shares rna-binding, proteins
- GSE287297 Fusion oncoproteins and cooperating mutations define disease phenotypes in NUP98-rearranged leukemia [RNA-seq] 70 samples shares proteins, leukemia
- GSE303955 High-throughput mapping of modular regulatory domains in human RNA-binding proteins 43 samples shares rna-binding, proteins
- GSE325326 Codon-dependent regulation of mRNA translation and stability by ZC3H7A and ZC3H7B RNA-binding proteins 24 samples shares rna-binding, proteins
- GSE297337 Codon-dependent regulation of mRNA translation and stability by ZC3H7A and ZC3H7B RNA-binding proteins [Ribo-seq] 15 samples shares rna-binding, proteins
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.