High-throughput data integration of RNA–miRNA–circRNA reveals novel insights into mechanisms of benzo[a]pyrene-induced carcinogenicity

Caiment, Florian; Gaj, Stan; Claessen, Sandra; Kleinjans, J. C. S.

doi:10.1093/nar/gkv115

Cited by 123 publications

(89 citation statements)

References 45 publications

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“…miR-29b-3p was also identified among B a P-mediated alterations and subsequent miRNA-mRNA interactions in mouse primary hepatocytes (miR-29b-3p and Col4a2 , miR-24-3p and Flna ), which were also found to be involved in cell cycle arrest and the impairment of repair mechanisms of DNA damage [71]. miR-181a-1-3p, was overexpressed in HEPG cells treated with B a P, and one of its targets, MGMT , a gene that encodes an enzyme involved in DNA damage repair, was decreased at the mRNA level [72]. In a study of human liver HepRG cells, treatment with B a P caused over-expression of miR-410 [73].…”

Section: Epigenetic Effects Associated With Carcinogenic Chemicalsmentioning

confidence: 99%

Epigenetic alterations induced by genotoxic occupational and environmental human chemical carcinogens: A systematic literature review

Chappell

Pogribny

Guyton

et al. 2016

Mutation Research/Reviews in Mutation Research

142

105

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Accumulating evidence suggests that epigenetic alterations play an important role in chemically-induced carcinogenesis. Although the epigenome and genome may be equally important in carcinogenicity, the genotoxicity of chemical agents and exposure-related transcriptomic responses have been more thoroughly studied and characterized. To better understand the evidence for epigenetic alterations of human carcinogens, and the potential association with genotoxic endpoints, we conducted a systematic review of published studies of genotoxic carcinogens that reported epigenetic endpoints. Specifically, we searched for publications reporting epigenetic effects for the 28 agents and occupations included in Monograph Volume 100F of the International Agency for the Research on Cancer (IARC) that were classified as “carcinogenic to humans” (Group 1) with strong evidence of genotoxic mechanisms of carcinogenesis. We identified a total of 158 studies that evaluated epigenetic alterations for 12 of these 28 carcinogenic agents and occupations (1,3-butadiene, 4-aminobiphenyl, aflatoxins, benzene, benzidine, benzo[a]pyrene, coke production, formaldehyde, occupational exposure as a painter, sulfur mustard, and vinyl chloride). Aberrant DNA methylation was most commonly studied, followed by altered expression of non-coding RNAs and histone changes (totaling 85, 59 and 25 studies, respectively). For 3 carcinogens (aflatoxins, benzene and benzo[a]pyrene), 10 or more studies reported epigenetic effects. However, epigenetic studies were sparse for the remaining 9 carcinogens; for 4 agents, only 1 or 2 published reports were identified. While further research is needed to better identify carcinogenesis-associated epigenetic perturbations for many potential carcinogens, published reports on specific epigenetic endpoints can be systematically identified and increasingly incorporated in cancer hazard assessments.

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Section: Epigenetic Effects Associated With Carcinogenic Chemicalsmentioning

confidence: 99%

Epigenetic alterations induced by genotoxic occupational and environmental human chemical carcinogens: A systematic literature review

Chappell

Pogribny

Guyton

et al. 2016

Mutation Research/Reviews in Mutation Research

142

105

View full text Add to dashboard Cite

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“…CircRNAs can act as miRNA sponges [8,10] and can function in gene regulation as transcription regulators interacting with the Pol II transcription complex [11] or by competing with linear splicing [12]. Other investigators have reported that circRNAs are involved in the growth of colorectal and ovarian cancers [13], and be associated with DNA damage in breast cancer cells [14].…”

Section: Introductionmentioning

confidence: 99%

Hsa_circ_0001649: A circular RNA and potential novel biomarker for hepatocellular carcinoma

Qin

Liu

Huo

et al. 2016

CBM

392

299

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Abstract. BACKGROUND: It has been shown that circular RNA (circRNA) is associated with human cancers, however, few studies have been reported in hepatocellular carcinoma (HCC). OBJECTIVE: To estimate clinical values of a circular RNA, Hsa_circ_0001649, in HCC. METHODS: Expression level of hsa_circ_0001649 was detected in HCC and paired adjacent liver tissues by real-time quantitative reverse transcription-polymerase chain reactions (qRT-PCRs). Differences in expression level of hsa_circ_0001649 were analyzed using the paired t-test. Tests were performed between clinical information and hsa_circ_0001649 expression level by analysis of variance (ANOVA) or welch t-test and a receiver operating characteristics (ROC) curve was established to estimate the value of hsa_circ_0001649 expression as a biomarker in HCC. RESULTS: hsa_circ_0001649 expression was significantly downregulated in HCC tissues (p = 0.0014) based on an analysis of 89 paired samples of HCC and adjacent liver tissues and the area under the ROC curve (AUC) was 0.63. Furthermore, hsa_circ_0001649 expression was correlated with tumor size (p = 0.045) and the occurrence of tumor embolus (p = 0.017) in HCC. CONCLUSIONS: We first found hsa_circ_0001649 was significantly downregulated in HCC. Our findings indicate hsa_circ_0001649 might serve as a novel potential biomarker for HCC and may function in tumorigenesis and metastasis of HCC.

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“…It has been reported that circRNAs participate in many essential biological processes and play important role as miRNA sponge [19-23]. However, there is no studies to date have reported the effects of circRNAs in patients with repeated implantation failure.…”

Section: Discussionmentioning

confidence: 99%

Altered Circular RNA Expression in Patients with Repeated Implantation Failure

Liu

et al. 2017

Cell Physiol Biochem

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Background/Aims: CircRNAs play an important role in regulating gene expression and the specific role of circRNAs in the pathogenesis of repeated implantation failure remains unclear. The aim of this study is to assess the differentially expressed circRNAs in patients with repeated implantation failure. Methods: We screened circRNA expression profiles in endometrial biopsies taken from six women with repeated implantation failure and control group using circRNA microarray. Bioinformatic analyses were applied to study these differentially expressed circRNAs. Furthermore, quantitative reverse transcription polymerase chain reaction (qRT-PCR) was performed to confirm these results. Results: The data from circRNA microarrays clearly revealed that 856 unique circRNAs were significantly altered (p<0.05). The up-regulated expression of hsa_circRNA_070616, hsa_circRNA_103716, hsa_circRNA_104001, hsa_circRNA_104854 and the down-regulated expression of hsa_circRNA_004183, hsa_circRNA_044353, hsa_circRNA_404686 were further validated by qRT-PCR. Conclusion: this study demonstrates that a number of circRNAs were differentially expressed in patients with repeated implantation failure compared with normal controls and may offer novel molecular candidates for diagnosis and clinical treatment of embryo implantation failures.

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High-throughput data integration of RNA–miRNA–circRNA reveals novel insights into mechanisms of benzo[a]pyrene-induced carcinogenicity

Cited by 123 publications

References 45 publications

Epigenetic alterations induced by genotoxic occupational and environmental human chemical carcinogens: A systematic literature review

Epigenetic alterations induced by genotoxic occupational and environmental human chemical carcinogens: A systematic literature review

Hsa_circ_0001649: A circular RNA and potential novel biomarker for hepatocellular carcinoma

Altered Circular RNA Expression in Patients with Repeated Implantation Failure

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