Methylation pattern of the putative tumor-suppressor gene LRRC3B promoter in clear cell renal cell carcinomas

Kondratov, Oleksandr; Stoliar, Liubov A.; Kvasha, S. M.; Gordiyuk, V. V.; Zgonnyk, Y. M.; Gerashchenko, G. V.; Vozianov, Alexander; Rynditch, A. V.; Zabarovsky, E.R.; Kashuba, Vladimir I.

doi:10.3892/mmr.2011.681

Cited by 12 publications

(12 citation statements)

References 17 publications

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“…Previous studies showed that LRRC3B is regulated by DNA methylation [44] and plays an important role in DNA repair [45]. Recent studies have proven that it could be a putative tumor suppressor gene in many types of cancer in human [46]. Interestingly, the transfection and expression of LRRC3B in gastric cancer cell line showed that immune response-related genes and IFN signaling genes can be activated effectively [47], suggesting that LRRC3B may be involved in immune-related processes that trigger the innate immune response through activation of the IFN signaling pathway.…”

Section: Discussionmentioning

confidence: 99%

Transcriptome Analysis of Duck Liver and Identification of Differentially Expressed Transcripts in Response to Duck Hepatitis A Virus Genotype C Infection

et al. 2013

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BackgroundDuck is an economically important poultry and animal model for human viral hepatitis B. However, the molecular mechanisms underlying host–virus interaction remain unclear because of limited information on the duck genome. This study aims to characterize the duck normal liver transcriptome and to identify the differentially expressed transcripts at 24 h after duck hepatitis A virus genotype C (DHAV-C) infection using Illumina–Solexa sequencing.ResultsAfter removal of low-quality sequences and assembly, a total of 52,757 unigenes was obtained from the normal liver group. Further blast analysis showed that 18,918 unigenes successfully matched the known genes in the database. GO analysis revealed that 25,116 unigenes took part in 61 categories of biological processes, cellular components, and molecular functions. Among the 25 clusters of orthologous group categories (COG), the cluster for “General function prediction only” represented the largest group, followed by “Transcription” and “Replication, recombination, and repair.” KEGG analysis showed that 17,628 unigenes were involved in 301 pathways. Through comparison of normal and infected transcriptome data, we identified 20 significantly differentially expressed unigenes, which were further confirmed by real-time polymerase chain reaction. Of the 20 unigenes, nine matched the known genes in the database, including three up-regulated genes (virus replicase polyprotein, LRRC3B, and PCK1) and six down-regulated genes (CRP, AICL-like 2, L1CAM, CYB26A1, CHAC1, and ADAM32). The remaining 11 novel unigenes that did not match any known genes in the database may provide a basis for the discovery of new transcripts associated with infection.ConclusionThis study provided a gene expression pattern for normal duck liver and for the previously unrecognized changes in gene transcription that are altered during DHAV-C infection. Our data revealed useful information for future studies on the duck genome and provided new insights into the molecular mechanism of host–DHAV-C interaction.

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Section: Discussionmentioning

confidence: 99%

Transcriptome Analysis of Duck Liver and Identification of Differentially Expressed Transcripts in Response to Duck Hepatitis A Virus Genotype C Infection

et al. 2013

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“…Thus, we showed hypermethylation of the LRRC3B promoter CpG-island in 43 % of clear cell RCC's [12]. Moreover, the restoration of LRRC3B expression led to a significant decrease of colony formation by KRC/Y cell line [23].…”

Section: Microarray Analysis Of Large-scale Searches For Epigenetic Cmentioning

confidence: 77%

“…The 7 of them were associated with other human cancers: MINT24, BHLHB2, ITGA9, RPL15, RARbeta1, RBSP3, and VHL. Some of them are accepted tumor suppressor genes, for example, LRRC3B and WNT7A [12,13].…”

Section: Microarray Analysis Of Large-scale Searches For Epigenetic Cmentioning

confidence: 99%

Novel epigenetic markers of early epithelial tumor growth and prognosis

et al. 2013

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The present work is aimed at clarifying genetic and epigenetic alterations that occur during carcinogenesis and designing perspective sets of newly identified biomarkers. The tumors of kidney, cervix, colon, ovary, and lung were analyzed in our work, using the chromosome 3 specific NotI microarrays (NMA). We have found loci/genes with essential changes in gene methylation of tumor samples. Changes in expression for these genes were confirmed. The Not-I microarray results have been used to develop epigenetic marker panels for the early detection of different tumor types (ovary and lung cancer), to discriminate the stages of tumor growth and to determine whether the tumor is metastasizing. Marker panel designing is of great perspective in clinical medicine

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“…The protein-conserved region of LRRC3B exists cAMP-and cGMP-dependent protein kinase phosphorylation sites; thus, related to cell differentiation, cycle regulation, proliferation and invasion [18,19]. Several studies have revealed LRRC3B could be as a tumor suppressor in carcinogenesis [20,21]. Formerly, the expression of LRRC3B was reduced in BC tissues and associated with tumor grade of BC [13].…”

Section: Discussionmentioning

confidence: 99%

LRRC3B polymorphisms contributed to breast cancer susceptibility in Chinese Han Population

Jin

Peng

Xing

et al. 2020

Preprint

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Purpose LRRC3B gene, as a tumor suppressor gene was involved in the development and progress of breast cancer (BC). However, the effect of LRRC3B polymorphisms on BC has rarely been reported. In the study, we aims to evaluate the relation between LRRC3B variants and BC risk. Methods Among 563 BC patients and 552 healthy controls, ten single-nucleotide polymorphisms (SNPs) in LRRC3B were genotyped by Agena MassARRAY. Odds ratios (OR) and 95% confidence interval (CI) was calculate using logistic regression model. Results Our study demonstrated that rs1907168 polymorphism (OR = 0.71, p = 0.017) reduced the risk of BC in the overall. In stratified analyses by age, rs1907168 decreased (OR = 0.53, p = 0.002) while rs78205284 (OR = 2.83, p = 0.034) increased BC susceptibility among the population at age ≤ 51 years. Clinical parameters such as tumor size, the status of PR and Ki67 were associated with LRRC3B variants. Furthermore, we found that the association of ‘GATT’ haplotype with an increased risk for BC. In addition, LRRC3B gene was down-regulated in BC tumor and had a poor prognosis in BC in silico analysis. Conclusion Our study firstly found LRRC3B SNPs contributed to the risk of BC, suggesting LRRC3B variants might help to predict BC progression.

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Methylation pattern of the putative tumor-suppressor gene LRRC3B promoter in clear cell renal cell carcinomas

Cited by 12 publications

References 17 publications

Transcriptome Analysis of Duck Liver and Identification of Differentially Expressed Transcripts in Response to Duck Hepatitis A Virus Genotype C Infection

Transcriptome Analysis of Duck Liver and Identification of Differentially Expressed Transcripts in Response to Duck Hepatitis A Virus Genotype C Infection

Novel epigenetic markers of early epithelial tumor growth and prognosis

LRRC3B polymorphisms contributed to breast cancer susceptibility in Chinese Han Population

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