Tra2b's Ultraconserved Poison Exon relays TCR stimulation to shape T cell fate [mTorSeq]
RNA-seq (gene expression) · mouse · 11 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
- 11 samples: 4 × Naïve vs 4 × Stim vs 3 × TorinGroups 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.
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 GSE267608_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 PRJNA1111925 and SRA study SRP507984. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 11 samples.
How we read this: 3 replicated groups read from 11 sample titles; they account for 11 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.
- GSM8270101 Naïve-1 Naïve
- GSM8270102 Stim-1 Stim
- GSM8270103 Torin-1 Torin
- GSM8270104 Naïve-2 Naïve
- GSM8270105 Stim-2 Stim
- GSM8270106 Naïve-3 Naïve
- GSM8270107 Stim-3 Stim
- GSM8270108 Torin-3 Torin
- GSM8270109 Naïve-4 Naïve
- GSM8270110 Stim-4 Stim
- GSM8270111 Torin-4 Torin
- GSE267603 Tra2b's Ultraconserved Poison Exon relays TCR stimulation to shape T cell fate [Tra2bKO] 18 samples shares tra2b, tcr, ultraconserved, stimulation, poison, relays, shape
- GSE277648 Stem cell-like CD8+ T cells lacking PD-1 adapt to chronic stimulation by reducing TCR signaling and self-renewal capacity [RNA-seq] 16 samples shares tcr, stimulation
- GSE235085 An essential role for the ultra-conserved poison exon of Tra2b in fertility in mice 11 samples shares tra2b, poison
- GSE233491 Bulk TCR-sequencing of various tissues in mice treated with 2% DSS or H2O control. 45 samples shares tcr
- GSE302856 Atomistic TCR-ligand interactions instruct memory T-cell differentiation and crossreactivity 28 samples shares tcr
- GSE317864 The Effector Differentiation of TCRαβ+CD8αα+ Intraepithelial Lymphocytes Is Reciprocally Regulated by BCL6 and BLIMP1 20 samples shares tcr
- GSE240414 Parsing digital or analogue TCR performance through piconewton forces 18 samples shares tcr
- GSE296314 Promoter- and Enhancer-Dependent Cohesin Loading Initiates Chromosome Looping to Fold Tcrb Loci for Long-Range Recombination [RNA-Seq] 16 samples shares tcr
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.