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A time course study about gene expression of post‐thermal injury with DNA microarray
Author(s) -
Ou Shan,
Liu GuoDong,
Tan Yan,
Zhou LeShun,
Bai ShuRong,
Xue Gang,
Li Jun,
Yang Yong,
Cui Jian,
Cheng JingMin,
Gu JianWen
Publication year - 2015
Publication title -
international journal of dermatology
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.677
H-Index - 93
eISSN - 1365-4632
pISSN - 0011-9059
DOI - 10.1111/ijd.12534
Subject(s) - burn injury , gene , gene expression , microarray analysis techniques , proinflammatory cytokine , microarray , medicine , period (music) , biology , inflammation , bioinformatics , genetics , immunology , physics , surgery , acoustics
Background Burn injury is one of the most common and devastating forms of trauma in daily life. However, the exact sequence of events after burn injury remains unknown. Objective This study aims to investigate gene expression alterations after burn injury. Methods Microarray data set GSE 8056 was downloaded from the Gene Expression Omnibus ( GEO ) database, including 12 samples, equally distributed in four groups: normal skin tissue as control and damaged tissues 1–3 days after burn (early period); 4–7 days after burn (middle period); and more than 7 days after burn (late period). Packages in R language were utilized to pre‐process the data and filter out the differentially expressed genes ( DEG s). Functional annotation of all three groups of DEG s was conducted by using clusters of orthologous groups analysis. The DEG s shared by all three groups were picked out and analyzed with STRING to set up a protein–protein interaction network. CF inder was chosen to implement module analysis, and expression analysis systematic explorer was then adopted to reveal the dysfunctional pathways for each module. Results A total of 727, 782, and 445 DEG s were identified in the early, middle, and late period after burn, and 234 DEG s were identified as continually differentially expressed throughout all time periods, including genes encoding proinflammatory cytokines, such as interleukin ( IL )‐6, IL ‐8, and IL ‐1 β , and genes associated with cell proliferation. Three modules associated with cell proliferation and inflammatory responses were generated from the protein–protein interaction network. Conclusion Our findings are beneficial for understanding the progression of the wound healing response after burn.