Differential gene expression profiles of hepatocellular carcinomas associated or not with viral infection

Bellodi-Privato, Marta; Kubrusly, Márcia Saldanha; Stefano, J.T.; Soares, Iberê C.; Wakamatsu, Alda; Oliveira, Ana Carolina Soares de; Alves, Venâncio Avancini Ferreira; Bacchella, Telésforo; Machado, M. C. C.; D’Albuquerque, Luiz Augusto Carneiro

doi:10.1590/s0100-879x2009005000037

Cited by 6 publications

(5 citation statements)

References 29 publications

(39 reference statements)

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“…The activation of interferon‐α and interferon‐β receptors activates Janus protein kinases and subsequently phosphorylates multiple proteins, such as STAT1 and STAT2 (de Weerd, Samarajiwa, & Hertzog, 2007). Furthermore, IFNAR1 is associated with the onset of hepatic tumors by participating in chronic HBV infection and HCV replication (Bellodi‐Privato et al, 2009; X. X. He et al, 2010; Zhang et al, 2012).…”

Section: Discussionmentioning

confidence: 99%

Retracted: Rs11655237 polymorphism of LINC00673 affects the prognosis of cervical cancer by interfering with the interaction between LINC00673 and microRNA‐1231

Zhu

2020

Journal Cellular Physiology

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Single‐nucleotide polymorphism (SNP) in long noncoding RNAs (lncRNAs) is known to disrupt the binding between lncRNAs and microRNAs. In this paper, we aimed to explore the role of LINC00673 rs11655237 SNP in the survival of cervical cancer (CC). Real‐time polymerase chain reaction and western‐blot analysis were used to detect expressions of LINC00673 and microRNA‐1231 (miR‐1231) in CC patients with different rs11655237 SNP genotypes. And the expression of LINC00673, miR‐1231, and IFNAR1 was measured in mice and cells treated with exosomes carrying GG, GA, and AA rs11655237 genotypes. Compared with patients carrying the rs11655237 A allele of LINC00673 rs11655237 SNP, patients carrying the G allele showed higher overall survival and higher miR‐1231 expression. In addition, the expression of miR‐1231 was the highest in patients carrying the GG genotype and the lowest in patients carrying the AA genotype. Furthermore, the exosomes carrying GG, GA, and AA genotypes of LINC00673 rs11655237 SNP reduced tumor growth in mice, while the inhibitory effect of rs11655237 A allele was much stronger than that of the rs11655237 G allele. Additionally, exosome treatment upregulated the expression of LINC000673 and IFNAR1 while downregulating the expression of miR‐1231. Interestingly, the A allele of rs11655237 generated a binding site for miR‐1231 and subsequently affected the expression of IFNAR1, a target gene of miR‐1231 containing a miR‐1231 binding site in its 3′‐untranslated region. Cells transfected with exosomes carrying GG, GA, and AA genotypes of LINC00673 rs11655237 SNP achieved higher LINC000673 and IFNAR1 expression along with lower miR‐1231 expression. Therefore, rs11655237 can be used as a prognostic biomarker for CC.

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Section: Discussionmentioning

confidence: 99%

Retracted: Rs11655237 polymorphism of LINC00673 affects the prognosis of cervical cancer by interfering with the interaction between LINC00673 and microRNA‐1231

Zhu

2020

Journal Cellular Physiology

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“…A few studies have been performed comparing the gene expression in HBV positive HCC and non-cancerous liver [6] and viral and non-viral HCC [7] in patient samples. However, no study has focused to identify the differential gene expression in infection with DHBV either in vivo or in vitro to facilitate a comparative analysis.…”

Section: Introductionmentioning

confidence: 99%

Differential gene expression analysis of in vitro duck hepatitis B virus infected primary duck hepatocyte cultures

Nair

Arathy

Issac

et al. 2011

Virol J

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BackgroundThe human hepatitis B virus (HBV), a member of the hepadna viridae, causes acute or chronic hepatitis B, and hepatocellular carcinoma (HCC). The duck hepatitis B virus (DHBV) infection, a dependable and reproducible model for hepadna viral studies, does not result in HCC unlike chronic HBV infection. Information on differential gene expression in DHBV infection might help to compare corresponding changes during HBV infection, and to delineate the reasons for this difference.FindingsA subtractive hybridization cDNA library screening of in vitro DHBV infected, cultured primary duck hepatocytes (PDH) identified cDNAs of 42 up-regulated and 36 down-regulated genes coding for proteins associated with signal transduction, cellular respiration, transcription, translation, ubiquitin/proteasome pathway, apoptosis, and membrane and cytoskeletal organization. Those coding for both novel as well as previously reported proteins in HBV/DHBV infection were present in the library. An inverse modulation of the cDNAs of ten proteins, reported to play role in human HCC, such as that of Y-box binding protein1, Platelet-activating factor acetylhydrolase isoform 1B, ribosomal protein L35a, Ferritin, α-enolase, Acid α-glucosidase and Caspase 3, copper-zinc superoxide dismutase (CuZnSOD), Filamin and Pyruvate dehydrogenase, was also observed in this in vitro study.ConclusionsThe present study identified cDNAs of a number of genes that are differentially modulated in in vitro DHBV infection of primary duck hepatocytes. Further correlation of this differential gene expression in in vivo infection models would be valuable to understand the little known aspects of the hepadnavirus biology.

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“…Second, this study was only preliminary to predict the functions of lncRNAs in HBV-HCC and further wet experiments should be performed to verify their ceRNA (luciferase assay, overexpression or silencing) or coexpression (coimmunoprecipitation) mechanisms. Third, previous studies have demonstrated that the gene profiles induced by HBV, HCV, and other etiologies were different [47][48][49]. Thus, theoretically, a distinct signature or results using the same signature may be obtained when a similar analysis was performed [50], which should be confirmed in subsequent studies.…”

Section: Discussionmentioning

confidence: 85%

Identification of a Novel Eight-lncRNA Prognostic Signature for HBV-HCC and Analysis of Their Functions Based on Coexpression and ceRNA Networks

Zhao

Bai

et al. 2020

BioMed Research International

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Studies have demonstrated the prognosis potential of long noncoding RNAs (lncRNAs) for hepatocellular carcinoma (HCC), but specific lncRNAs for hepatitis B virus- (HBV-) related HCC have rarely been reported. This study was aimed at identifying a lncRNA prognostic signature for HBV-HCC and exploring their underlying functions. The sequencing dataset was collected from The Cancer Genome Atlas database as the training set, while the microarray dataset was obtained from the European Bioinformatics Institute database (E-TABM-36) as the validation set. Univariate and multivariate Cox regression analyses identified that eight lncRNAs (TSPEAR-AS1, LINC00511, LINC01136, MKLN1-AS, LINC00506, KRTAP5-AS1, ZNF252P-AS1, and THUMPD3-AS1) were significantly associated with overall survival (OS). These eight lncRNAs were used to construct a risk score model. The Kaplan-Meier survival curve results showed that this risk score can significantly differentiate the OS between the high-risk group and the low-risk group. Receiver operating characteristic curve analysis demonstrated that this risk score exhibited good prediction effectiveness (area under the curve AUC=0.990 for the training set; AUC=0.903 for the validation set). Furthermore, this lncRNA risk score was identified as an independent prognostic factor in the multivariate analysis after adjusting other clinical characteristics. The crucial coexpression (LINC00511-CABYR, THUMPD3-AS1-TRIP13, LINC01136-SFN, LINC00506-ANLN, and KRTAP5-AS1/TSPEAR-AS1/MKLN1-AS/ZNF252P-AS1-MC1R) or competing endogenous RNA (THUMPD3-AS1-hsa-miR-450a-TRIP13) interaction axes were identified to reveal the possible functions of lncRNAs. These genes were enriched into cell cycle-related biological processes or pathways. In conclusion, our study identified a novel eight-lncRNA prognosis signature for HBV-HCC patients and these lncRNAs may be potential therapeutic targets.

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Differential gene expression profiles of hepatocellular carcinomas associated or not with viral infection

Cited by 6 publications

References 29 publications

Retracted: Rs11655237 polymorphism of LINC00673 affects the prognosis of cervical cancer by interfering with the interaction between LINC00673 and microRNA‐1231

Retracted: Rs11655237 polymorphism of LINC00673 affects the prognosis of cervical cancer by interfering with the interaction between LINC00673 and microRNA‐1231

Differential gene expression analysis of in vitro duck hepatitis B virus infected primary duck hepatocyte cultures

Identification of a Novel Eight-lncRNA Prognostic Signature for HBV-HCC and Analysis of Their Functions Based on Coexpression and ceRNA Networks

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