Pcbp1 is crucial for Naïve-to-Primed pluripotency transition due to regulation of amino acid metabolism [RNA-seq]
RNA-seq (gene expression) · mouse · 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
- Mus musculus (mouse)
- Samples
- 12 samples: 3 × Naive cells, wild type, vs 3 × Naive cells, PCBP1 KO, vs 3 × EpiLC cells, wild type, vs 3 × EpiLC cells, PCBP1 KO,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.
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 GSE264035_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 PRJNA1100582 and SRA study SRP501905. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 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.
- GSM8209067 Naive cells, wild type, rep 1 Naive cells, wild type,
- GSM8209068 Naive cells, wild type, rep 2 Naive cells, wild type,
- GSM8209069 Naive cells, wild type, rep 3 Naive cells, wild type,
- GSM8209070 Naive cells, PCBP1 KO, rep 1 Naive cells, PCBP1 KO,
- GSM8209071 Naive cells, PCBP1 KO, rep 2 Naive cells, PCBP1 KO,
- GSM8209072 Naive cells, PCBP1 KO, rep 3 Naive cells, PCBP1 KO,
- GSM8209073 EpiLC cells, wild type, rep 1 EpiLC cells, wild type,
- GSM8209074 EpiLC cells, wild type, rep 2 EpiLC cells, wild type,
- GSM8209075 EpiLC cells, wild type, rep 3 EpiLC cells, wild type,
- GSM8209076 EpiLC cells, PCBP1 KO, rep 1 EpiLC cells, PCBP1 KO,
- GSM8209077 EpiLC cells, PCBP1 KO, rep 2 EpiLC cells, PCBP1 KO,
- GSM8209078 EpiLC cells, PCBP1 KO, rep 3 EpiLC cells, PCBP1 KO,
- GSE252224 Cpt1a drives lipid remodeling in primed-to-naïve pluripotency transition [RNA-Seq 1] 18 samples shares pluripotency, transition, rna-seq
- GSE275669 RNA binding protein Pcbp1 maintains mitochondria integrity to promote antibody production and germinal center response[RNA-seq] 10 samples shares pcbp1, rna-seq
- GSE274544 Single cell profiling reveals three endothelial to hematopoietic transitions with divergent isoform expression landscapes [scRNA-Seq] 1494 samples shares transition, rna-seq
- GSE309071 Single cell profiling reveals three endothelial to hematopoietic transitions with divergent isoform expression landscapes [RNA-seq] 221 samples shares transition, rna-seq
- GSE264615 Emerging cooperativity between Oct4 and Sox2 governs the pluripotency network in mouse early embryos [RNA-seq] 123 samples shares pluripotency, rna-seq
- GSE289641 Noncanonical PRC2 chromatin association reveals a key role of EZHIP in intergenerational epigenetic memory transition [RNA-Seq] 68 samples shares transition, rna-seq
- GSE249389 Transcriptional shut-off of MAP kinase signaling enables pluripotency maintenance during diapause [RNA-seq] 32 samples shares pluripotency, rna-seq
- GSE272476 Neutrophils exposed to a cholesterol metabolite secrete extracellular vesicles that promote epithelial-mesenchymal transition and stemness in breast cancer cells [RNA-seq] 30 samples shares transition, rna-seq
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.