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Liu, Zhengtao
Publications (5 of 5) Show all publications
Huang, K., Liao, X., Han, C., Wang, X., Yu, T., Yang, C., . . . Peng, T. (2019). Genetic variants and Expression of Cytochrome p450 Oxidoreductase Predict Postoperative Survival in Patients with Hepatitis B Virus-Related Hepatocellular Carcinoma. Journal of Cancer, 10(6), 1453-1465
Open this publication in new window or tab >>Genetic variants and Expression of Cytochrome p450 Oxidoreductase Predict Postoperative Survival in Patients with Hepatitis B Virus-Related Hepatocellular Carcinoma
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2019 (English)In: Journal of Cancer, ISSN 1837-9664, E-ISSN 1837-9664, Vol. 10, no 6, p. 1453-1465Article in journal (Refereed) Published
Abstract [en]

Our current study investigates the prognostic values of genetic variants and mRNA expression of cytochrome p450 oxidoreductase (POR) in hepatitis B virus (HBV)-related hepatocellular carcinoma (HCC). A total of 19 candidate single nucleotide polymorphisms (SNPs) located in the exons of POR were genotyped using Sanger sequencing from 476 HBV-related HCC patients who underwent hepatectomy between 2003 and 2013. The mRNA expression of POR in 212 patients with HBV-related HCC was obtained from GSE14520 dataset. Survival analysis was performed to investigate the association of POR variants and mRNA expression with overall survival (OS) and recurrence-free survival (RFS). Nomograms were used to predict the prognosis of HBV-related HCC patients. Gene set enrichment analysis (GSEA) was used to investigate the mechanism of POR in HBV-related HCC prognosis. The polymorphism POR-rs1057868 was significantly associated with HBV-related HCC OS (CT/TT vs. CC, hazard ratio [HR] = 0.69, 95% confidence interval [CI] = [0.54, 0.88], P = 0.003), but not significantly associated with RFS (CT/TT vs. CC, P = 0.378). POR mRNA expression was also significantly associated with HBV-related HCC OS (high vs. low, HR = 0.61, 95% CI = [0.38, 0.97], P= 0.036), but not significantly associated with the RFS (high vs. low, P = 0.201). Two nomograms were developed to predict the HBV-related HCC OS. Furthermore, GSEA suggests that multiple gene sets were significantly enriched in liver cancer survival and recurrence, as well as POR-related target therapy in the liver. In conclusion, our study suggests that POR-rs1057868 and mRNA expression may serve as a potential postoperative prognosis biomarker in HBV-related HCC.

Place, publisher, year, edition, pages
IVYSPRING INT PUBL, 2019
Keywords
hepatocellular carcinoma, cytochrome p450 oxidoreductase, prognosis, hepatitis B virus, hepatectomy
National Category
Basic Medicine
Identifiers
urn:nbn:se:kth:diva-246295 (URN)10.7150/jca.28919 (DOI)000459711200013 ()
Note

QC 20190325

Available from: 2019-03-25 Created: 2019-03-25 Last updated: 2019-05-13Bibliographically approved
Liao, X., Wang, X., Huang, K., Han, C., Deng, J., Yu, T., . . . Peng, T. (2019). Integrated analysis of competing endogenous RNA network revealing potential prognostic biomarkers of hepatocellular carcinoma. Journal of Cancer, 10(14), 3267-3283
Open this publication in new window or tab >>Integrated analysis of competing endogenous RNA network revealing potential prognostic biomarkers of hepatocellular carcinoma
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2019 (English)In: Journal of Cancer, ISSN 1837-9664, E-ISSN 1837-9664, Vol. 10, no 14, p. 3267-3283Article in journal (Refereed) Published
Abstract [en]

Objective: The goal of our study is to identify a competing endogenous RNA (ceRNA) network using dysregulated RNAs between HCC tumors and the adjacent normal liver tissues from The Cancer Genome Atlas (TCGA) datasets, and to investigate underlying prognostic indicators in hepatocellular carcinoma (HCC) patients. Methods: All of the RNA- and miRNA-sequencing datasets of HCC were obtained from TCGA, and dysregulated RNAs between HCC tumors and the adjacent normal liver tissues were investigated by DESeq and edgeR algorithm. Survival analysis was used to confirm underlying prognostic indicators. Results: In the present study, we constructed a ceRNA network based on 16 differentially expressed genes (DEGs), 7 differentially expressed microRNAs and 34 differentially expressed long non-coding RNAs (DELs). Among these dysregulated RNAs, three DELs (AP002478.1, HTR2A-AS1, and ERVMER61-1) and six DEGs (enhancer of zeste homolog 2 [EZH2], kinesin family member 23 [KIF23], chromobox 2 [CBX2], centrosomal protein 55 [CEP55], cell division cycle 25A [CDC25A], and claspin [CLSPN]) were used for construct a prognostic signature for HCC overall survival (OS), and performed well in HCC OS (adjusted P<0.0001, adjusted hazard ratio = 2.761, 95% confidence interval = 1.838-4.147). Comprehensive survival analysis demonstrated that this prognostic signature may be act as an independent prognostic indicator of HCC OS. Functional assessment of these dysregulated DEGs in the ceRNA network and gene set enrichment of this prognostic signature suggest that both were enriched in the biological processes and pathways of the cell cycle, cell division and cell proliferation. Conclusions: Our current study constructed a ceRNA network for HCC, and developed a prognostic signature that may act as an independent indicator for HCC OS.

Place, publisher, year, edition, pages
Ivyspring International Publisher, 2019
Keywords
competing endogenous RNA, hepatocellular carcinoma, bioinformatics, prognosis, TCGA
National Category
Cancer and Oncology
Identifiers
urn:nbn:se:kth:diva-254121 (URN)10.7150/jca.29986 (DOI)000470088200023 ()2-s2.0-85070557159 (Scopus ID)
Note

QC 20190624

Available from: 2019-06-24 Created: 2019-06-24 Last updated: 2019-10-04Bibliographically approved
Liu, Z., Zhang, C., Lee, S., Kim, W., Klevstig, M., Harzandi, A. M., . . . Mardinoglu, A. (2019). Pyruvate kinase L/R is a regulator of lipid metabolism and mitochondrial function. Metabolic engineering
Open this publication in new window or tab >>Pyruvate kinase L/R is a regulator of lipid metabolism and mitochondrial function
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2019 (English)In: Metabolic engineering, ISSN 1096-7176, E-ISSN 1096-7184Article in journal (Refereed) Published
National Category
Bioinformatics and Systems Biology
Identifiers
urn:nbn:se:kth:diva-248703 (URN)
Note

QC 20190425

Available from: 2019-04-09 Created: 2019-04-09 Last updated: 2019-04-25Bibliographically approved
Lee, S., Zhang, C., Liu, Z., Klevstig, M., Mukhopadhyay, B., Bergentall, M., . . . Mardinoglu, A. (2017). Network analyses identify liver-specific targets for treating liver diseases. Molecular Systems Biology
Open this publication in new window or tab >>Network analyses identify liver-specific targets for treating liver diseases
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2017 (English)In: Molecular Systems Biology, ISSN 1744-4292, E-ISSN 1744-4292Article in journal (Refereed) Published
National Category
Bioinformatics and Systems Biology
Identifiers
urn:nbn:se:kth:diva-248643 (URN)
Note

QC 20190425

Available from: 2019-04-09 Created: 2019-04-09 Last updated: 2019-04-25Bibliographically approved
Lee, S., Zhang, C., Arif, M., Liu, Z., Benfeitas, R., Bidkhori, G., . . . Mardinoglu, A. (2017). TCSBN: a database of tissue and cancer specific biological networks. Nucleic Acids Research
Open this publication in new window or tab >>TCSBN: a database of tissue and cancer specific biological networks
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2017 (English)In: Nucleic Acids Research, ISSN 0305-1048, E-ISSN 1362-4962Article in journal (Refereed) Published
National Category
Bioinformatics and Systems Biology
Identifiers
urn:nbn:se:kth:diva-248672 (URN)
Note

QC 20190423

Available from: 2019-04-09 Created: 2019-04-09 Last updated: 2019-04-25Bibliographically approved
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