Effect of depletion of PNPLA1 in gene expression during keratinocyte differentiation on reconstructed human epidermis
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: 3 × RHE WT vs 3 × RHE KO PNPLA1 A5 vs 3 × RHE KO PNPLA1 C1 vs 3 × RHE KO PNPLA1 E11Groups 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
- A standardized approach to test missense PNPLA1 rare genetic variants of uncertain significance in epidermal differentiation disordersJID innovations : skin science from molecules to population health · 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 GSE272321_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 PRJNA1136442 and SRA study SRP520137. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 replicated groups read from 12 sample titles; they account for 12 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.
- GSM8398351 RHE WT R1 RHE WT
- GSM8398352 RHE WT R2 RHE WT
- GSM8398353 RHE WT R3 RHE WT
- GSM8398354 RHE KO PNPLA1 A5 R1 RHE KO PNPLA1 A5
- GSM8398355 RHE KO PNPLA1 A5 R2 RHE KO PNPLA1 A5
- GSM8398356 RHE KO PNPLA1 A5 R3 RHE KO PNPLA1 A5
- GSM8398357 RHE KO PNPLA1 C1 R1 RHE KO PNPLA1 C1
- GSM8398358 RHE KO PNPLA1 C1 R2 RHE KO PNPLA1 C1
- GSM8398359 RHE KO PNPLA1 C1 R3 RHE KO PNPLA1 C1
- GSM8398360 RHE KO PNPLA1 E11 R1 RHE KO PNPLA1 E11
- GSM8398361 RHE KO PNPLA1 E11 R2 RHE KO PNPLA1 E11
- GSM8398362 RHE KO PNPLA1 E11 R3 RHE KO PNPLA1 E11
- GSE288492 Transcriptome Response to Autoantibodies in Human Primary Epidermis Keratinocyte Model for Pemphgus Vulgaris 24 samples shares keratinocyte, epidermis
- GSE328048 Single-cell transcriptome reveals keratinocyte subclusters that contribute to altered differentiation and inflammatory responses in atopic dermatitis 116 samples shares keratinocyte
- GSE281531 Effect of depletion of MALAT1 on gene expression during LPS stimulation on THP-1 derived differentiated macrophages 24 samples shares depletion
- GSE263454 Gene expression analysis on melanoma cell lines and effects of NIPBL depletion 22 samples shares depletion
- GSE289091 Effects of mechanical stretch and depletion of lamin A/C on gene expression in human myotubes (RNAseq) 18 samples shares depletion
- GSE265772 Effect of depletion of IMPDH1 and IMPDH2 on gene expression after DNA damage in HeLa cells 18 samples shares depletion
- GSE264653 Effect of MITF depletion on gene expression in U2OS cells 18 samples shares depletion
- GSE265998 Effect of DHX29, GIGYF2, 4EHP, and DHX29/4EHP depletion on gene expression in K562 cells 15 samples shares depletion
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.