Bulk RNA-seq of SIT1 knockout and control T cells from human healthy donors
RNA-seq (gene expression) · human · 24 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
- 24 samples: 18 distinct titles, 5 of them repeatedGroups 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
- Homozygous loss-of-function mutation in SIT1 leads to combined immunodeficiency due to dysregulated T-cell receptor signalingThe Journal of allergy and clinical immunology · 2026
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 GSE325729_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 PRJNA1441533. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 24 sample titles: 18 distinct titles with little repetition. 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.
- GSM9611367 AAVS1_sgRNA(control), anti-CD3 stimulated for 2 hours, donor2, batch3
- GSM9611368 AAVS1_sgRNA(control), unstimulated, donor2, batch3
- GSM9611369 AAVS1_sgRNA(control), anti-CD3 stimulated for 2 hours, donor2, batch2
- GSM9611370 AAVS1_sgRNA(control), anti-CD3 stimulated for 2 hours, donor3, batch2
- GSM9611371 AAVS1_sgRNA(control), unstimulated, donor1, batch2
- GSM9611372 AAVS1_sgRNA(control), unstimulated, donor2, batch2
- GSM9611373 AAVS1_sgRNA(control), unstimulated, donor3, batch2
- GSM9611374 AAVS1_sgRNA(control), anti-CD3 stimulated for 2 hours, donor1, batch1
- GSM9611375 AAVS1_sgRNA(control), anti-CD3 stimulated for 2 hours, donor3, batch1
- GSM9611376 AAVS1_sgRNA(control), unstimulated, donor1,batch1
- GSM9611377 AAVS1_sgRNA(control), unstimulated, donor2,batch1
- GSM9611378 AAVS1_sgRNA(control), unstimulated, donor3, batch1
- GSM9611379 KO_sgRNA2, anti-CD3 stimulated for 2 hours, donor1, batch2
- GSM9611380 KO_sgRNA2, anti-CD3 stimulated for 2 hours, donor2, batch2
- GSM9611381 KO_sgRNA2, anti-CD3 stimulated for 2 hours, donor3, batch2
- GSM9611382 KO_sgRNA2, unstimuated, donor1, batch2
- GSM9611383 KO_sgRNA2, unstimulated, donor2, batch2
- GSM9611384 KO_sgRNA2, unstimulated, donor3, batch2
- GSM9611385 KO_sgRNA4, anti-CD3 stimulated for 2 hours, donor1, batch1
- GSM9611386 KO_sgRNA4, anti-CD3 stimulated for 2 hours, donor2, batch1
- GSM9611387 KO_sgRNA4, anti-CD3 stimulated for 2 hours, donor3, batch1
- GSM9611388 KO_sgRNA4, unstimulated, donor1, batch1
- GSM9611389 KO_sgRNA4, unstimulated, donor2, batch1
- GSM9611390 KO_sgRNA4, unstimulated, donor3, batch1
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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.