Comprehensive and combined omics analysis reveals factors of ischemia-reperfusion injury in liver transplantation

Shanzhou Huang; Weiqiang Ju; Zebin Zhu; Ming Han; Chengjun Sun; Yunhua Tang; Yuchen Hou; Zhiheng Zhang; Jie Yang; Yixi Zhang; Linhe Wang; Fanxiong Lin; Haitian Chen; Rongxing Xie; Caihui Zhu; Dongping Wang; Linwei Wu; Qiang Zhao; Maogen Chen; Qi Zhou; Zhiyong Guo; Xiaoshun He

doi:10.2217/epi-2018-0189

Comprehensive and combined omics analysis reveals factors of ischemia-reperfusion injury in liver transplantation

Shanzhou Huang, Weiqiang Ju, Zebin Zhu, Ming Han, Chengjun Sun, Yunhua Tang, Yuchen Hou, Zhiheng Zhang, Jie Yang, Yixi Zhang, Linhe Wang, Fanxiong Lin, Haitian Chen, Rongxing Xie, Caihui Zhu, Dongping Wang, Linwei Wu, Qiang Zhao, Maogen Chen, Qi ZhouZhiyong Guo, Xiaoshun He

Houston Methodist

Research output: Contribution to journal › Article › peer-review

29 Scopus citations

Abstract

Aim: To explore molecular mechanisms underlying liver ischemia-reperfusion injury (IRI). Materials & methods: Four Gene Expression Omnibus datasets comprising liver transplantation data were collected for a comprehensive analysis. A proteomic analysis was performed and used for correlations analysis with transcriptomic. Results & conclusion: Ten differentially expressed genes were co-upregulated in four Gene Expression Omnibus datasets, including ATF3, CCL4, DNAJB1, DUSP5, JUND, KLF6, NFKBIA, PLAUR, PPP1R15A and TNFAIP3. The combined analysis demonstrated ten coregulated genes/proteins, including HBB, HBG2, CA1, SLC4A1, PLIN2, JUNB, HBA1, MMP9, SLC2A1 and PADI4. The coregulated differentially expressed genes and coregulated genes/proteins formed a tight interaction network and could serve as the core factors underlying IRI. Comprehensive and combined omics analyses revealed key factors underlying liver IRI, and thus having potential clinical significance.

Original language	English (US)
Pages (from-to)	527-542
Number of pages	16
Journal	Epigenomics
Volume	11
Issue number	5
DOIs	https://doi.org/10.2217/epi-2018-0189
State	Published - Apr 2019

Keywords

combined analysis
comprehensive analysis
ischemia-reperfusion injury
liver transplantation
proteome
transcriptome

ASJC Scopus subject areas

Genetics
Cancer Research

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10.2217/epi-2018-0189

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Huang, S., Ju, W., Zhu, Z., Han, M., Sun, C., Tang, Y., Hou, Y., Zhang, Z., Yang, J., Zhang, Y., Wang, L., Lin, F., Chen, H., Xie, R., Zhu, C., Wang, D., Wu, L., Zhao, Q., Chen, M., ... He, X. (2019). Comprehensive and combined omics analysis reveals factors of ischemia-reperfusion injury in liver transplantation. Epigenomics, 11(5), 527-542. https://doi.org/10.2217/epi-2018-0189

Huang, S, Ju, W, Zhu, Z, Han, M, Sun, C, Tang, Y, Hou, Y, Zhang, Z, Yang, J, Zhang, Y, Wang, L, Lin, F, Chen, H, Xie, R, Zhu, C, Wang, D, Wu, L, Zhao, Q, Chen, M, Zhou, Q, Guo, Z & He, X 2019, 'Comprehensive and combined omics analysis reveals factors of ischemia-reperfusion injury in liver transplantation', Epigenomics, vol. 11, no. 5, pp. 527-542. https://doi.org/10.2217/epi-2018-0189

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title = "Comprehensive and combined omics analysis reveals factors of ischemia-reperfusion injury in liver transplantation",

abstract = "Aim: To explore molecular mechanisms underlying liver ischemia-reperfusion injury (IRI). Materials \& methods: Four Gene Expression Omnibus datasets comprising liver transplantation data were collected for a comprehensive analysis. A proteomic analysis was performed and used for correlations analysis with transcriptomic. Results \& conclusion: Ten differentially expressed genes were co-upregulated in four Gene Expression Omnibus datasets, including ATF3, CCL4, DNAJB1, DUSP5, JUND, KLF6, NFKBIA, PLAUR, PPP1R15A and TNFAIP3. The combined analysis demonstrated ten coregulated genes/proteins, including HBB, HBG2, CA1, SLC4A1, PLIN2, JUNB, HBA1, MMP9, SLC2A1 and PADI4. The coregulated differentially expressed genes and coregulated genes/proteins formed a tight interaction network and could serve as the core factors underlying IRI. Comprehensive and combined omics analyses revealed key factors underlying liver IRI, and thus having potential clinical significance.",

keywords = "combined analysis, comprehensive analysis, ischemia-reperfusion injury, liver transplantation, proteome, transcriptome",

author = "Shanzhou Huang and Weiqiang Ju and Zebin Zhu and Ming Han and Chengjun Sun and Yunhua Tang and Yuchen Hou and Zhiheng Zhang and Jie Yang and Yixi Zhang and Linhe Wang and Fanxiong Lin and Haitian Chen and Rongxing Xie and Caihui Zhu and Dongping Wang and Linwei Wu and Qiang Zhao and Maogen Chen and Qi Zhou and Zhiyong Guo and Xiaoshun He",

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AU - Huang, Shanzhou

AU - Ju, Weiqiang

AU - Zhu, Zebin

AU - Han, Ming

AU - Sun, Chengjun

AU - Tang, Yunhua

AU - Hou, Yuchen

AU - Zhang, Zhiheng

AU - Yang, Jie

AU - Zhang, Yixi

AU - Wang, Linhe

AU - Lin, Fanxiong

AU - Chen, Haitian

AU - Xie, Rongxing

AU - Zhu, Caihui

AU - Wang, Dongping

AU - Wu, Linwei

AU - Zhao, Qiang

AU - Chen, Maogen

AU - Zhou, Qi

AU - Guo, Zhiyong

AU - He, Xiaoshun

PY - 2019/4

Y1 - 2019/4

N2 - Aim: To explore molecular mechanisms underlying liver ischemia-reperfusion injury (IRI). Materials & methods: Four Gene Expression Omnibus datasets comprising liver transplantation data were collected for a comprehensive analysis. A proteomic analysis was performed and used for correlations analysis with transcriptomic. Results & conclusion: Ten differentially expressed genes were co-upregulated in four Gene Expression Omnibus datasets, including ATF3, CCL4, DNAJB1, DUSP5, JUND, KLF6, NFKBIA, PLAUR, PPP1R15A and TNFAIP3. The combined analysis demonstrated ten coregulated genes/proteins, including HBB, HBG2, CA1, SLC4A1, PLIN2, JUNB, HBA1, MMP9, SLC2A1 and PADI4. The coregulated differentially expressed genes and coregulated genes/proteins formed a tight interaction network and could serve as the core factors underlying IRI. Comprehensive and combined omics analyses revealed key factors underlying liver IRI, and thus having potential clinical significance.

AB - Aim: To explore molecular mechanisms underlying liver ischemia-reperfusion injury (IRI). Materials & methods: Four Gene Expression Omnibus datasets comprising liver transplantation data were collected for a comprehensive analysis. A proteomic analysis was performed and used for correlations analysis with transcriptomic. Results & conclusion: Ten differentially expressed genes were co-upregulated in four Gene Expression Omnibus datasets, including ATF3, CCL4, DNAJB1, DUSP5, JUND, KLF6, NFKBIA, PLAUR, PPP1R15A and TNFAIP3. The combined analysis demonstrated ten coregulated genes/proteins, including HBB, HBG2, CA1, SLC4A1, PLIN2, JUNB, HBA1, MMP9, SLC2A1 and PADI4. The coregulated differentially expressed genes and coregulated genes/proteins formed a tight interaction network and could serve as the core factors underlying IRI. Comprehensive and combined omics analyses revealed key factors underlying liver IRI, and thus having potential clinical significance.

KW - combined analysis

KW - comprehensive analysis

KW - ischemia-reperfusion injury

KW - liver transplantation

KW - proteome

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Comprehensive and combined omics analysis reveals factors of ischemia-reperfusion injury in liver transplantation

Abstract

Keywords

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