Regulation by the RNA-binding protein Unkempt at its effector interface [Ribo]
RNA-seq (gene expression) · human · 12 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
- 12 samples: 6 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.
- Paper
- Regulation by the RNA-binding protein Unkempt at its effector interfaceNature communications · 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 GSE240563_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 PRJNA1004241 and SRA study SRP454488. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 4 samples read as cases, 4 as controls.
How we read this: 6 replicated groups read from 12 sample titles; they account for 12 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.
- GSM7701764 Ribo_seq.3M_L11 Ribo_seq.3M_L
- GSM7701765 Ribo_seq.3M_L3 Ribo_seq.3M_L
- GSM7701766 Ribo_seq.dPAM2_L12 Ribo_seq.dPAM2_L
- GSM7701767 Ribo_seq.dPAM2_L4 Ribo_seq.dPAM2_L
- GSM7701768 Ribo_seq.Uninduced_L1 Ribo_seq.Uninduced_L
- GSM7701769 Ribo_seq.Uninduced_L9 Ribo_seq.Uninduced_L
- GSM7701770 Ribo_seq.WT_L10 Ribo_seq.WT_L
- GSM7701771 Ribo_seq.WT_L2 Ribo_seq.WT_L
- GSM7701772 Ribo_seq.Uninduced_CNOT9ko_1 Ribo_seq.Uninduced_CNOT…
- GSM7701773 Ribo_seq.Uninduced_CNOT9ko_2 Ribo_seq.Uninduced_CNOT…
- GSM7701774 Ribo_seq.WT_CNOT9ko_1 Ribo_seq.WT_CNOT9ko
- GSM7701775 Ribo_seq.WT_CNOT9ko_2 Ribo_seq.WT_CNOT9ko
- GSE282113 The RNA-binding protein PRRC2B preserves 5' TOP mRNA during starvation to maintain ribosome biogenesis during recovery 15 samples shares rna-binding, protein, ribo
- GSE274188 RAPIDASH: Tag-free enrichment of ribosome-associated proteins reveals compositional dynamics in embryonic tissues, cancer cells, and macrophages [RNA-Seq and Ribo-Seq] 12 samples shares protein, ribo
- GSE325326 Codon-dependent regulation of mRNA translation and stability by ZC3H7A and ZC3H7B RNA-binding proteins 24 samples shares rna-binding, protein
- GSE290248 Large-scale tethered screen of RNA-binding proteins reveals novel regulators of poly(A) site selection 97 samples shares rna-binding, protein
- GSE290282 Large-scale tethered screen of RNA-binding proteins reveals novel regulators of poly(A) site selection [RNA-Seq] 92 samples shares rna-binding, protein
- 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, protein
- GSE315668 Robust effector memory features of human T-bet-hi B cells induced by repeated mRNA vaccination 42 samples shares effector
- GSE284343 Eighteen-year survival after GD2-directed Chimeric Antigen Receptor-Modified Immune Effector Cell Treatment for Neuroblastoma 12 samples shares effector
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.