Tissue-resident memory T cells drive CD103-dependent salivary gland inflammatory infiltration in primary Sjogren's syndrome
RNA-seq (gene expression) · human · 10 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
- 10 samples: 10 samples, each with a distinct title — no replicated groupsGroups 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
- CD8(+) tissue-resident memory T cells are expanded in primary Sjögren's disease and can be therapeutically targeted by CD103 blockadeAnnals of the rheumatic diseases · 2024
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 GSE252724_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 PRJNA1062333 and SRA study SRP482593. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 10 sample titles: 10 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.
- GSM8005844 SJ donor 1 and SJ donor 3 Biopsy (SJ01_SJ03_Biopsy) - GEX
- GSM8005845 SJ donor 1 and SJ donor 3 Biopsy (SJ01_SJ03_Biopsy) - CSP
- GSM8005846 SJ donor 10 and SJ donor 11 Biopsy (SJ10_SJ11_Biopsy) - GEX
- GSM8005847 SJ donor 10 and SJ donor 11 Biopsy (SJ10_SJ11_Biopsy) - CSP
- GSM8005848 SJ donor 1 and SJ donor 3 PBMC (SJ01_SJ03_PBMC) - GEX
- GSM8005849 SJ donor 1 and SJ donor 3 PBMC (SJ01_SJ03_PBMC) - CSP
- GSM8005850 SJ donor 10 and SJ donor 11 PBMC (SJ10_SJ11_PBMC) - GEX
- GSM8005851 SJ donor 10 and SJ donor 11 PBMC (SJ10_SJ11_PBMC) - CSP
- GSM8005852 SJ donor 4 PBMC and SJ donor 4 Biopsy (SJ04_PBMC_SJ04_Biopsy) - GEX
- GSM8005853 SJ donor 4 PBMC and SJ donor 4 Biopsy (SJ04_PBMC_SJ04_Biopsy) - CSP
- GSE200996 Tissue-resident Memory and Circulating T cells are Early Responders to Pre-surgical Cancer Immunotherapy 204 samples shares tissue-resident, memory
- GSE318164 Molecular Heterogeneity and Immune Infiltration Drive Clinical Outcomes in Upper Tract Urothelial Carcinoma 113 samples shares infiltration, drive
- GSE90730 Tissue-resident memory features are linked to the magnitude of cytotoxic T cell responses in human lung cancer 109 samples shares tissue-resident, memory
- GSE305372 Human lungs maintain tissue-resident memory T cells against a broad spectrum of pathogens. 91 samples shares tissue-resident, memory
- GSE90728 Tissue-resident memory features are linked to the magnitude of cytotoxic T cell responses in human lung cancer [NSCLC] 68 samples shares tissue-resident, memory
- GSE90729 Tissue-resident memory features are linked to the magnitude of cytotoxic T cell responses in human lung cancer [HNSCC] 41 samples shares tissue-resident, memory
- GSE94964 Human tissue-resident memory T cells are defined by core transcriptional and functional signatures in lymphoid and mucosal sites 30 samples shares tissue-resident, memory
- GSE247264 Single-cell analysis reveals clonal expansions of pro-inflammatory tissue-resident memory Th17 cells in Crohn's disease 22 samples shares tissue-resident, memory
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.