IGF2BP1 stabilizes OTX2 mRNA in an m6A-dependent manner to restrict human germ cell fate by repressing TFAP2C [RNA-seq]
RNA-seq (gene expression) · human · 32 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Homo sapiens (human)
- Samples
- 32 samples: 16 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.
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 GSE266418_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: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA1107147 and SRA study SRP505444. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 32 samples.
How we read this: 16 replicated groups read from 32 sample titles; they account for 32 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.
- GSM8246672 wild type_hESCs_rep1 wild type_hESCs
- GSM8246673 wild type_hESCs_rep2 wild type_hESCs
- GSM8246674 IGF2BP1-KO_hESCs_rep1 IGF2BP1-KO_hESCs
- GSM8246675 IGF2BP1-KO_hESCs_rep2 IGF2BP1-KO_hESCs
- GSM8246676 OTX2-KO_hESCs_rep1 OTX2-KO_hESCs
- GSM8246677 OTX2-KO_hESCs_rep2 OTX2-KO_hESCs
- GSM8246678 OTX2-GFP-OE_hESCs_rep1 OTX2-GFP-OE_hESCs
- GSM8246679 OTX2-GFP-OE_hESCs_rep2 OTX2-GFP-OE_hESCs
- GSM8246680 wild type_endoderm_rep1 wild type_endoderm
- GSM8246681 wild type_endoderm_rep2 wild type_endoderm
- GSM8246682 IGF2BP1-KO_endoderm_rep1 IGF2BP1-KO_endoderm
- GSM8246683 IGF2BP1-KO_endoderm_rep2 IGF2BP1-KO_endoderm
- GSM8246684 wild type_mesoderm_rep1 wild type_mesoderm
- GSM8246685 wild type_mesoderm_rep2 wild type_mesoderm
- GSM8246686 IGF2BP1-KO_mesoderm_rep1 IGF2BP1-KO_mesoderm
- GSM8246687 IGF2BP1-KO_mesoderm_rep2 IGF2BP1-KO_mesoderm
- GSM8246688 wild type_ectoderm_rep1 wild type_ectoderm
- GSM8246689 wild type_ectoderm_rep2 wild type_ectoderm
- GSM8246690 IGF2BP1-KO_ectoderm_rep1 IGF2BP1-KO_ectoderm
- GSM8246691 IGF2BP1-KO_ectoderm_rep2 IGF2BP1-KO_ectoderm
- GSM8246692 wild type_iMeLCs_rep1 wild type_iMeLCs
- GSM8246693 wild type_iMeLCs_rep2 wild type_iMeLCs
- GSM8246696 wild type_hPGCLCs_rep1 wild type_hPGCLCs
- GSM8246697 wild type_hPGCLCs_rep2 wild type_hPGCLCs
- GSM8246698 IGF2BP1-KO_hPGCLCs_rep1 IGF2BP1-KO_hPGCLCs
- GSM8246699 IGF2BP1-KO_hPGCLCs_rep2 IGF2BP1-KO_hPGCLCs
- GSM8246700 OTX2-KO_iMeLCs_rep1 OTX2-KO_iMeLCs
- GSM8246701 OTX2-KO_iMeLCs_rep2 OTX2-KO_iMeLCs
- GSM8246702 OTX2-GFP-OE_iMeLCs_rep1 OTX2-GFP-OE_iMeLCs
- GSM8246703 OTX2-GFP-OE_iMeLCs_rep2 OTX2-GFP-OE_iMeLCs
- GSM8758391 IGF2BP1-KO_iMeLCs_rep1 IGF2BP1-KO_iMeLCs
- GSM8758392 IGF2BP1-KO_iMeLCs_rep2 IGF2BP1-KO_iMeLCs
- GSE266420 IGF2BP1 stabilizes OTX2 mRNA in an m6A-dependent manner to restrict human germ cell fate by repressing TFAP2C [CUT&Tag] 4 samples shares igf2bp1, tfap2c, otx2, m6a-dependent, stabilizes, repressing, restrict
- GSE272874 IGF2BP1 phosphorylation regulates ribonucleoprotein condensate formation by impairing low-affinity protein and RNA interactions (RNA-Seq) 26 samples shares igf2bp1, rna-seq
- GSE279798 TFAP2C and HNRNPK control cellular bioenergetic metabolism and prion propagation [RNA-seq] 9 samples shares tfap2c, rna-seq
- GSE284083 Targeting IGF2BP1 Enhances Immune Checkpoint Therapy in High-grade Serous Ovarian Cancer [polyA RNA-seq, unsorted co-cultures] 9 samples shares igf2bp1, rna-seq
- GSE234706 Targeting IGF2BP1 Enhances Immune Checkpoint Therapy in High-grade Serous Ovarian Cancer [polyA RNA-seq, sorted co-cultures] 8 samples shares igf2bp1, rna-seq
- GSE171816 SUMOylation Regulates Super-Enhancers Through Transcription Factor TFAP2C Binding on Chromatin [RNA-seq] 8 samples shares tfap2c, rna-seq
- GSE202974 IGF2BP1 regulate proliferation of multiple myeloma with chromosome 1q gain via CDC5L in a M6A way [RNA-seq] 6 samples shares igf2bp1, rna-seq
- GSE283587 The IGF2BP1 oncogene is a druggable m6A-dependent enhancer of YAP1-driven gene expression in tumor growth 6 samples shares igf2bp1, m6a-dependent
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.