T-lymphocyte recruitment and retention in lichen planus
Single-cell RNA-seq · human · 20 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart. Read from the summary: GEO's own type field only says 'expression profiling by sequencing', so confirm it in the paper.
- Organism
- Homo sapiens (human)
- Samples
- 20 samples: 20 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
- CXCL9, CXCL10, and CCL19 synergistically recruit T lymphocytes to skin in lichen planusJCI insight · 2024
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 GSE254542_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 PRJNA1071003 and SRA study SRP486758. 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 20 sample titles: 20 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.
- GSM8045696 LP patient 1 affected skin scRNA-seq
- GSM8045697 LP patient 2 affected skin scRNA-seq
- GSM8045698 LP patient 3 affected skin scRNA-seq
- GSM8045699 LP patient 4 affected skin scRNA-seq
- GSM8045700 LP patient 5 affected skin scRNA-seq
- GSM8045701 LP patient 6 affected skin scRNA-seq
- GSM8045702 LP patient 7 affected skin scRNA-seq
- GSM8045703 LP patient 1 unaffected skin scRNA-seq
- GSM8045704 LP patient 2 unaffected skin scRNA-seq
- GSM8045705 LP patient 3 unaffected skin scRNA-seq
- GSM8045706 LP patient 4 unaffected skin scRNA-seq
- GSM8045707 LP patient 6 unaffected skin scRNA-seq
- GSM8045708 LP patient 7 unaffected skin scRNA-seq
- GSM8045709 LP patient 1 PBMC scRNA-seq
- GSM8045710 LP patient 2 PBMC scRNA-seq
- GSM8045711 LP patient 3 PBMC scRNA-seq
- GSM8045712 LP patient 4 PBMC scRNA-seq
- GSM8045713 LP patient 5 PBMC scRNA-seq
- GSM8045714 LP patient 6 PBMC scRNA-seq
- GSM8045715 LP patient 7 PBMC scRNA-seq
- GSE280583 bulk RNA-seq of lichen planus 49 samples shares lichen, planus
- GSE303468 Transcrpitomic analysis of Oral lichen planus and oral lichenoid lesions 42 samples shares lichen, planus
- GSE317789 Single-cell and spatial profiling reveal cDC2A-CXCL13+ CD8+ T-epithelial cell crosstalk and cytotoxicity through TNFRSF9 in cutaneous and mucosal lichen planus 42 samples shares lichen, planus
- GSE280584 scRNA of lichen planus 41 samples shares lichen, planus
- GSE213346 Immune microenvironment and molecular mechanism of oral lichen planus [bullk RNA-Seq] 40 samples shares lichen, planus
- GSE243940 Single cell profiling of lichen planus identifies type I interferon response and potential therapeutic targeting 9 samples shares lichen, planus
- GSE211630 Immune microenvironment and molecular mechanism of oral lichen planus [Single cell RNA-Seq] 6 samples shares lichen, planus
- GSE52130 Gene expression profiling of oral and genital lichen planus epithelium and normal oral and genital epithelium 23 samples shares lichen, planus
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.