Gene expression data of Lin28a-positive MuSCs using RNA-seq and RIP-seq
RNA-seq (gene expression) · mouse · 14 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
- 14 samples: 7 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
- Lin28a forms an RNA-binding complex with Igf2bp3 to regulate m(6)A-modified stress response genes in stress granules of muscle stem cellsCell proliferation · 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 GSE262720_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 PRJNA1093056 and SRA study SRP498513. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 14 samples.
How we read this: 7 replicated groups read from 14 sample titles; they account for 14 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.
- GSM8174472 Con_In_rep1 Con_In
- GSM8174473 Con_In_rep2 Con_In
- GSM8174474 La_In_rep1 La_In
- GSM8174475 La_In_rep2 La_In
- GSM8174476 Con_Igf2bp3_rep1 Con_Igf2bp3
- GSM8174477 Con_Igf2bp3_rep2 Con_Igf2bp3
- GSM8174478 La_Igf2bp3_rep1 La_Igf2bp3
- GSM8174479 La_Igf2bp3_rep2 La_Igf2bp3
- GSM8174480 Con_m6A_rep1 Con_m6A
- GSM8174481 Con_m6A_rep2 Con_m6A
- GSM8174482 La_m6A_rep1 La_m6A
- GSM8174483 La_m6A_rep2 La_m6A
- GSM8174484 La_Lin28a_rep1 La_Lin28a
- GSM8174485 La_Lin28a_rep2 La_Lin28a
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- GSE337460 Chlamydia serovars in uterus- scRNA-seq, CITE-seq and TCRab 30 samples shares rna-seq
- GSE330911 Spleen and brain T cells in Toxoplasma gondii infection- scRNA-seq, CITE-seq and TCRab 30 samples shares rna-seq
- GSE330985 Positive and Negative Selection of abT cells (OT-I and OT-II) in the thymus 2 - scRNA-seq, CITE-seq and TCRab 21 samples shares rna-seq
- GSE274125 Timestamp tracing delineates thymic regulatory T cell ontogeny in native conditions [scRNA-seq] 20 samples shares rna-seq
- GSE267967 Foxp3 and BATF cooperatively direct cis-regulatory programs and gene expression for functional differentiation of Treg cells [RNA-seq] 26 samples shares rna-seq
- GSE264105 Plate-based scRNA-seq of plasma-positive microglia and plasma-negative microglia in young mice 1111 samples shares rna-seq
- GSE263415 Spatial hepatocyte plasticity of gluconeogenic gene expression and gluconeogenic activity during the metabolic transitions between fed, fasted and starvation states [RNA-Seq] 18 samples shares 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.