GEO series
Whole-transcriptome analysis illustrates evolving transcriptional human response to injury in acute wounds and scars
GSE178411
Homo sapiens
Expression profiling by high throughput sequencing
108 samples
Submitted 2024/06/03
Platform GPL24676
Summary
The goal of this study was to use RNA sequencing to identify novel genes involved in wound healing and scar formation in human burn wounds and scars. RNA was isolated from 108 human samples comprising of uninjured skin (n=26), acute burn wounds (n=54), and hypertrophic scars (HTS) (n=30). Genes with at least 1.5-fold change and a p-value less than 0.05 with a false discovery rate of 0.05 were considered differentially expressed. Samples were sequenced using Illumina Hi-Seq sequencers, and pathway/Gene Ontology (GO) Enrichment analysis was conducted using iPathwayGuide. Comparing wounds to uninjured skin, we found 9,311 differentially expressed genes, accounting for 1,017 GO terms. Comparing HTS to uninjured skin, we found 7,299 differentially expressed genes, accounting for 1,022 GO terms. By analyzing the whole transcriptome, we characterized dominant genes expressed temporally in wounds and scars. This study reveals the complexity of these processes and helps to bring novel genes to light.
This dataset
Download
Direct links to NCBI, no account and no request form: the whole study as GSE178411_RAW.tar, processed values as the series matrix, the supplementary file directory, and per-sample supplementary files for any of the 108 samples. Raw sequencing reads are also available from ENA.
Also filed as BioProject PRJNA738896 and SRA study SRP324508. Searching any of these in the dataset finder brings you back here.
Study design
35 conditions, each sampled once — no replicated groups
Patient 42 Late wound ×3
Patient 30 Late wound ×2
Patient 32 Late wound ×2
Patient 45 Early Wound ×2
Read from the first 40 of 108 sample titles: 35 distinct titles with little repetition. Check it against the sample list below before relying on it.
Samples in this study
0 selected
- GSM5390523 12-W: Patient 12 Early Wound
- GSM5390524 13-W: Patient 13 Late wound
- GSM5390525 14-S: Patient 14 Normal scar
- GSM5390526 16-D: Patient 15 Normal skin
- GSM5390527 17-S: Patient 16 Normal scar
- GSM5390528 18-S: Patient 17 HTS
- GSM5390529 30-W1: Patient 29 Early Wound
- GSM5390530 30-W4: Patient 29 Late wound
- GSM5390531 31-D: Patient 30 Normal skin
- GSM5390532 31-W1: Patient 30 Late wound
- GSM5390533 31-W2: Patient 30 Late wound
- GSM5390534 32-D: Patient 31 Normal skin
- GSM5390535 33-D: Patient 32 Normal skin
- GSM5390536 33-W1: Patient 32 Late wound
- GSM5390537 33-WE1: Patient 32 Late wound
- GSM5390538 34-D: Patient 33 Normal skin
- GSM5390539 35-D: Patient 34 Normal skin
- GSM5390540 36-S: Patient 35 HTS
- GSM5390541 37-W: Patient 36 Late wound
- GSM5390542 38-D: Patient 37 Normal skin
- GSM5390543 38-WE: Patient 37 Early Wound
- GSM5390544 40-WE: Patient 39 Late wound
- GSM5390545 41-D: Patient 40 Normal skin
- GSM5390546 41-WE: Patient 40 Early Wound
- GSM5390547 42-WE: Patient 41 Early Wound
- GSM5390548 43-D: Patient 42 Normal skin
- GSM5390549 43-W2: Patient 42 Late wound
- GSM5390550 43-WE: Patient 42 Late wound
- GSM5390551 43-WE2: Patient 42 Late wound
- GSM5390552 44-D: Patient 43 Normal skin
- GSM5390553 44-WE: Patient 43 Late wound
- GSM5390554 45-S: Patient 44 HTS
- GSM5390555 45-W: Patient 44 Chronic wound
- GSM5390556 46-D: Patient 45 Normal skin
- GSM5390557 46-WE: Patient 45 Early Wound
- GSM5390558 46-WE2: Patient 45 Early Wound
- GSM5390559 47-S: Patient 46 HTS
- GSM5390560 48-WE: Patient 47 Early Wound
- GSM5390561 49-S: Patient 48 HTS
- GSM5390562 50-D: Patient 49 Normal skin
+ 68 more — browse all 108 samples with per-sample file links →
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