Tra2b's Ultraconserved Poison Exon relays TCR stimulation to shape T cell fate [Tra2bKO]
RNA-seq (gene expression) · mouse · 18 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
- 18 samples: 8 × Control_C vs 8 × Naïve_N vs 2 × Tra2bKO_BGroups 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 GSE267603_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 PRJNA1111919 and SRA study SRP508002. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 18 samples.
How we read this: 3 replicated groups read from 18 sample titles; they account for 18 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.
- GSM8270059 Control_C1 Control_C
- GSM8270060 Control_C2 Control_C
- GSM8270061 Control_C3 Control_C
- GSM8270062 Control_C4 Control_C
- GSM8270063 Control_C5 Control_C
- GSM8270064 Control_C6 Control_C
- GSM8270065 Control_C7 Control_C
- GSM8270066 Control_C8 Control_C
- GSM8270067 Naïve_N1 Naïve_N
- GSM8270068 Naïve_N2 Naïve_N
- GSM8270069 Naïve_N3 Naïve_N
- GSM8270070 Naïve_N4 Naïve_N
- GSM8270071 Naïve_N5 Naïve_N
- GSM8270072 Naïve_N6 Naïve_N
- GSM8270073 Naïve_N7 Naïve_N
- GSM8270074 Naïve_N8 Naïve_N
- GSM8270075 Tra2bKO_B1 Tra2bKO_B
- GSM8270076 Tra2bKO_B2 Tra2bKO_B
- GSE267608 Tra2b's Ultraconserved Poison Exon relays TCR stimulation to shape T cell fate [mTorSeq] 11 samples shares tra2b, tcr, ultraconserved, stimulation, poison, relays, shape
- GSE267601 Tra2b's Ultraconserved Poison Exon relays TCR stimulation to shape T cell fate [PEKOSeq] 8 samples shares tra2b, tcr, ultraconserved, stimulation, poison, relays, shape
- GSE267588 Tra2b's Ultraconserved Poison Exon relays TCR stimulation to shape T cell fate [N4T4Seq] 6 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
- GSE282703 Zeaxanthin augments CD8+ effector T cell function by enhancing TCR stimulation 9 samples shares tcr, stimulation
- GSE235084 An essential role for the ultra-conserved poison exon of Tra2b in fertility in mice (RNA-seq) 8 samples shares tra2b, poison
- GSE277649 Stem cell-like CD8+ T cells lacking PD-1 adapt to chronic stimulation by reducing TCR signaling and self-renewal capacity [scRNA-seq] 6 samples shares tcr, stimulation
- GSE312449 Durable control of autoimmunity requires sustained stimulation of regulatory T cells [TCR scRNA-Seq] 4 samples shares tcr, stimulation
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.