Identifying ST6GAL1 as a novel factor for human dermal fibroblast photoaging
RNA-seq (gene expression) · human · 6 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
- 6 samples: 3 × HDF cell, NC vs 3 × HDF cell, UVAGroups 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.
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 GSE329475_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 PRJNA1459316 and SRA study SRP695952. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 6 samples.
How we read this: 2 replicated groups read from 6 sample titles; they account for 6 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.
- GSM9704852 HDF cell, NC1 HDF cell, NC
- GSM9704853 HDF cell, NC2 HDF cell, NC
- GSM9704854 HDF cell, NC3 HDF cell, NC
- GSM9704855 HDF cell, UVA1 HDF cell, UVA
- GSM9704856 HDF cell, UVA2 HDF cell, UVA
- GSM9704857 HDF cell, UVA3 HDF cell, UVA
- GSE224698 Gene expression profiles of human dermal fibroblasts and human pluripotent stem cells analyzed by bulk RNA-seq 69 samples shares fibroblast, dermal
- GSE251807 Investigation of gene expression changes in normal human dermal fibroblasts after exposure to bone marrow mesenchymal stromal cell secretome 32 samples shares fibroblast, dermal
- GSE298908 Positionally distinct interferon-stimulated dermal immune-acting fibroblasts promote neutrophil recruitment in Sweet's syndrome [RNA-seq] 113 samples shares fibroblast, dermal
- GSE305928 Effect of latrunculin A on gene expression in human skin dermal fibroblasts 12 samples shares fibroblast, dermal
- GSE325569 Transcription analysis of primary dermal fibroblasts with different genotypes for CTGF rs9399005 SNP after irradiation or sham irradiation 51 samples shares fibroblast, dermal
- GSE303591 Single-cell RNA sequencing clarifies dermal fibroblast subset representation in vitro and reveals variable persistence of keloid disease-associated features [bulk-RNAseq] 16 samples shares fibroblast, dermal
- GSE243457 Identifying human pre-mRNA cleavage and polyadenylation factors by genome-wide CRISPR screens in a dual fluorescence readthrough reporter 28 samples shares identifying, factor
- GSE273882 Arginine Promotes The Activation of Human Lung Fibroblasts Independent of Its Metabolism 52 samples shares fibroblast
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.