Molecular and spatial analysis unveils the functional basis of tertiary lymphoid structures in Sjogren’s syndrome[scRNA-seq]
Single-cell RNA-seq · human · 13 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart.
- Organism
- Homo sapiens (human)
- Samples
- 13 samples: 13 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
- Molecular and spatial analysis of tertiary lymphoid structures in Sjogren's syndromeNature communications · 2025
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 GSE272409_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: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.
Also filed as BioProject PRJNA1136831 and SRA study SRP520454. 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 13 sample titles: 13 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.
- GSM8401511 SjD, Patient1, scRNAseq
- GSM8401512 SjD, Patient2, scRNAseq
- GSM8401513 SjD, Patient3, scRNAseq
- GSM8401514 SjD, Patient4, scRNAseq
- GSM8401515 SjD, Patient5, scRNAseq
- GSM8401516 SjD, Patient6, scRNAseq
- GSM8401517 SjD, Patient7, scRNAseq
- GSM8401518 non-SjD Sicca, Patient1, scRNAseq
- GSM8401519 non-SjD Sicca, Patient2, scRNAseq
- GSM8401520 non-SjD Sicca, Patient3, scRNAseq
- GSM8401521 non-SjD Sicca, Patient4, scRNAseq
- GSM8401522 non-SjD Sicca, Patient5, scRNAseq
- GSM8401523 non-SjD Sicca, Patient6, scRNAseq
- GSE272410 Molecular and spatial analysis unveils the functional basis of tertiary lymphoid structures in Sjogren’s syndrome[bulk RNA-seq] 73 samples shares structures, tertiary, lymphoid, spatial, unveils, sjogren, basis
- GSE271059 Spatial immune profiling defines a subset of human gliomas with functional tertiary lymphoid structures [bulk RNA seq] 64 samples shares structures, tertiary, lymphoid, spatial
- GSE206245 Single-Cell and Spatial Transcriptome Analyses Reveal Tertiary Lymphoid Structures Linked to Tumour Progression and Immunotherapy Response in Nasopharyngeal Carcinoma 18 samples shares structures, tertiary, lymphoid, spatial
- GSE272347 Late-stage tertiary lymphoid structures in hepatocellular carcinoma treated with neoadjuvant immune checkpoint blockade [scRNA-seq] 17 samples shares structures, scrna-seq, tertiary, lymphoid
- GSE272346 Late-stage tertiary lymphoid structures in hepatocellular carcinoma treated with neoadjuvant immune checkpoint blockade [bulk RNA-seq] 14 samples shares structures, tertiary, lymphoid
- GSE272348 Late-stage tertiary lymphoid structures in hepatocellular carcinoma treated with neoadjuvant immune checkpoint blockade 31 samples shares structures, tertiary, lymphoid
- GSE270680 A spatially resolved atlas of gastric cancer characterises a lymphocyte aggregated region [scRNA-seq] 77 samples shares scrna-seq, spatial
- GSE190564 Divergent spatial microdomains drive inflammation and repair in Ulcerative and Immune Checkpoint Therapy Colitis - whole tissue scRNA-Seq 62 samples shares scrna-seq, spatial
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.