Tra2b's Ultraconserved Poison Exon relays TCR stimulation to shape T cell fate
RNA-seq (gene expression) · human · 63 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
- 63 samples: 14 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.
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 GSE267609_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 PRJNA1111921 and SRA study SRP507972. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 59 samples.
How we read this: 14 replicated groups read from 63 sample titles; they account for 59 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.
- GSM8269415 Control-1 Control
- GSM8269416 Tra2bPE-1 Tra2bPE
- GSM8269417 Naïve-1 Naïve
- GSM8269418 Control-2 Control
- GSM8269419 Tra2b-PE-2 Tra2b-PE
- GSM8269420 Naïve-2 Naïve
- GSM8269421 Control-3 Control
- GSM8269422 Tra2b-PE-3 Tra2b-PE
- GSM8269423 Naïve-3 Naïve
- GSM8269424 Control-4 Control
- GSM8269425 Tra2bPE-4 Tra2bPE
- GSM8269426 Naïve-4 Naïve
- GSM8269427 Input_Effector_IgG
- GSM8269428 Input_Effector_Tra2b_1 Input_Effector_Tra2b
- GSM8269429 Input_Effector_Tra2b_2 Input_Effector_Tra2b
- GSM8269430 IP_Effector_IgG
- GSM8269431 IP_Effector_Tra2b_1 IP_Effector_Tra2b
- GSM8269432 IP_Effector_Tra2b_2 IP_Effector_Tra2b
- GSM8269433 Input__Naive_Tra2b
- GSM8269434 IP_Naive_Tra2b
- GSM8269435 N4-1 N4
- GSM8269436 N4-2 N4
- GSM8269437 T4-1 T4
- GSM8269438 T4-2 T4
- GSM8269439 Naïve-1 Naïve
- GSM8269440 Naïve-2 Naïve
- GSM8270043 Control_1 Control
- GSM8270044 PEKO_1 PEKO
- GSM8270045 Control_2 Control
- GSM8270046 PEKO_2 PEKO
- GSM8270047 Control_3 Control
- GSM8270048 PEKO_3 PEKO
- GSM8270049 Control_4 Control
- GSM8270050 PEKO_4 PEKO
- 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
+ 23 more — browse all 63 samples with per-sample file links →
- GSE224721 Dynamics of γδ TCR repertoire during the de-differentiation and treatment course of thyroid cancer 5 samples shares tcr
- GSE99299 Cytokine Stimulation of PTPN2-deleted cancer cells 81 samples shares 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.