Transcriptomic profiling of lesional and healthy skin in pemphigus patients reveals IL-17–driven immune response
RNA-seq (gene expression) · human · 12 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
- 12 samples: 6 × lesional skin from pemphigus patient P vs 2 × healthy skin from healthy control HGroups 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
- Immunophenotyping in pemphigus reveals a T(H)17/T(FH)17 cell-dominated immune response promoting desmoglein1/3-specific autoantibody productionThe Journal of allergy and clinical immunology · 2021
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 GSE299468_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 PRJNA1274486 and SRA study SRP591101. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 6 samples read as cases, 6 as controls.
How we read this: 2 replicated groups read from 12 sample titles; they account for 8 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.
- GSM9039559 lesional skin from pemphigus patient P1 lesional skin from pemp…
- GSM9039560 lesional skin from pemphigus patient P2 lesional skin from pemp…
- GSM9039561 lesional skin from pemphigus patient P4 lesional skin from pemp…
- GSM9039562 lesional skin from pemphigus patient P10 lesional skin from pemp…
- GSM9039563 lesional skin from pemphigus patient P14 lesional skin from pemp…
- GSM9039564 lesional skin from pemphigus patient P22 lesional skin from pemp…
- GSM9039565 healthy skin from healthy control A
- GSM9039566 healthy skin from healthy control C
- GSM9039567 healthy skin from healthy control D
- GSM9039568 healthy skin from healthy control E
- GSM9039569 healthy skin from healthy control H8 healthy skin from healt…
- GSM9039570 healthy skin from healthy control H10 healthy skin from healt…
- GSE212476 Skin expression data from psoriasis patients treated with IL-17A inhibitor 40 samples shares il-17, skin
- GSE334588 Single-cell transcriptomic atlas of adult dermatomyositis, cutaneous lupus erythematosus and healthy skin 48 samples shares healthy, skin
- GSE255918 Functional Dynamics of Dendritic Cells in Response to Cutibacterium acnes Strains Associated with Healthy and Acne-prone Skin 68 samples shares healthy, skin
- GSE244679 Whole Transcriptome Profiling of Lesional Psoriatic and Adjacent Normal Skin Tissues 48 samples shares lesional, skin
- GSE295540 RNA-seq result of human skin derived from patients with psoriasis and healthy controls. 13 samples shares healthy, skin
- GSE267066 Comparative gene expression in healthy African American and White Non-Hispanic skin 11 samples shares healthy, skin
- GSE280371 IL-17A Alters Human Cortical Development in a 3D Ex Vivo Model of Maternal Immune Activation 24 samples shares il-17
- GSE283500 scRNASeq Data of Tcells in psoriatic skin and healthy skin and TCR analysis of Treg sorted from Psoriatic skin 27 samples shares healthy, skin
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.