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DNA methylation miRNA

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https://www.readbyqxmd.com/read/28230826/modifying-effects-of-5-azacytidine-on-metal-containing-proteins-profile-in-guerin-carcinoma-with-different-sensitivity-to-cytostatics
#1
V F Chekhun, Y V Lozovska, L A Naleskina, T V Borikun, A P Burlaka, I N Todor, D V Demash, T M Yalovenko, T V Zadvornyi, A O Pavlova, D M Storchay, N Yu Lukianova
AIM: To assess the influence of the treatment with 5-azacytidine (5-aza) on the profile of metal-containing proteins and factors of their regulation in Guerin carcinoma cells in vivo. MATERIALS AND METHODS: The study was conducted on Wistar rats transplanted with wild-type Guerin carcinoma (Guerin/WT) and its strains resistant to cisplatin (Guerin/CP) or doxorubicin (Guerin/Dox). Animals were distributed in 6 groups treated with 5-aza and control animals without treatment...
December 2016: Experimental Oncology
https://www.readbyqxmd.com/read/28229965/atmbd6-a-methyl-cpg-binding-domain-protein-maintains-gene-silencing-in-arabidopsis-by-interacting-with-rna-binding-proteins
#2
Adwaita Prasad Parida, Amrapali Sharma, Arun Kumar Sharma
DNA methylation, mediated by double-stranded RNA, is a conserved epigenetic phenomenon that protects a genome from transposons, silences unwanted genes and has a paramount function in plant or animal development. Methyl CpG binding domain proteins are members of a class of proteins that bind to methylated DNA. The Arabidopsis thaliana genome encodes 13 methyl CpG binding domain (MBD) proteins, but the molecular/biological functions of most of these proteins are still not clear. In the present study, we identified four proteins that interact with AtMBD6...
March 2017: Journal of Biosciences
https://www.readbyqxmd.com/read/28214857/epigenetic-alterations-in-cellular-immunity-new-insights-into-autoimmune-diseases
#3
Zijun Wang, Qianjin Lu, Zhihui Wang
Epigenetic modification is an additional regulator in immune responses as the genome-wide profiling somehow fails to explain the sophisticated mechanisms in autoimmune diseases. The effect of epigenetic modifications on adaptive immunity derives from their regulations to induce a permissive or negative gene expression. Epigenetic events, such as DNA methylation, histone modifications and microRNAs (miRNAs) are often found in T cell activation, differentiation and commitment which are the major parts in cellular immunity...
February 8, 2017: Cellular Physiology and Biochemistry
https://www.readbyqxmd.com/read/28208005/expression-of-microrna-in-host-cells-infected-with-helicobacter-pylori
#4
Jun-Won Chung, Seok Hoo Jeong, Sun Mi Lee, Jhang Ho Pak, Gin Hyug Lee, Jin-Yong Jeong, Jin-Ho Kim
Background/Aims: MicroRNAs (miRNAs) regulate gene expression. We assess miRNA regulation by Helicobacter pylori infection and elucidate their role in H. pylori-infected gastric epithelial cells. Methods: The relationship between miRNA expression and DNA methylation was examined. Cells were treated with the nuclear factor-kappaB (NF-κB) inhibitor Bay 11-7082 to determine the relationship between miRNA expression and NF-κB signal transduction. Results: In the negative control cells infected with H...
February 17, 2017: Gut and Liver
https://www.readbyqxmd.com/read/28202385/long-term-consequences-of-disrupting-adenosine-signaling-during-embryonic-development
#5
REVIEW
Scott A Rivkees, Christopher C Wendler
There is growing evidence that disruption in the prenatal environment can have long-lasting effects on an individual's health in adulthood. Research on the fetal programming of adult diseases, including cardiovascular disease, focuses on epi-mutations, which alter the normal pattern of epigenetic factors such as DNA methylation, miRNA expression, or chromatin modification, rather than traditional genetic alteration. Thus, understanding how in utero chemical exposures alter epigenetics and lead to adult disease is of considerable public health concern...
February 12, 2017: Molecular Aspects of Medicine
https://www.readbyqxmd.com/read/28202042/hoxc8-regulates-self-renewal-differentiation-and-transformation-of-breast-cancer-stem-cells
#6
Mansi Shah, Ryan Cardenas, Belinda Wang, Jenny Persson, Nigel P Mongan, Anna Grabowska, Cinzia Allegrucci
BACKGROUND: Homeobox genes are master regulators of cell fate during embryonic development and their expression is altered in cancer. By regulating the balance between cell proliferation and differentiation, they maintain homeostasis of normal tissues. Here, we screened the expression of homeobox genes in mammary stem cells to establish their role in stem cells transformation in breast cancer. METHODS: Using a Homeobox Genes PCR array, we screened 83 homeobox genes in normal cancer breast stem/progenitor cells isolated by flow cytometry...
February 16, 2017: Molecular Cancer
https://www.readbyqxmd.com/read/28194229/circulating-and-tissue-biomarkers-in-early-stage-non-small-cell-lung-cancer
#7
Caterina Fumagalli, Fabrizio Bianchi, Paola Rafaniello Raviele, Davide Vacirca, Giovanni Bertalot, Cristiano Rampinelli, Matteo Lazzeroni, Bernardo Bonanni, Giulia Veronesi, Nicola Fusco, Massimo Barberis, Elena Guerini-Rocco
OBJECTIVE: We sought to characterise circulating and tissue tumour biomarkers of patients who developed early-stage non-small cell lung cancer (NSCLC) during long-term follow-up of a chemoprevention trial (NCT00321893). MATERIALS AND METHODS: Blood and sputum samples were collected from 202 high-risk asymptomatic individuals with CT-detected stable lung nodules. Real-time PCR was performed on plasma to quantify free circulating DNA. Baseline serum was investigated with a previously validated test based on 13 circulating miRNAs (miR-Test)...
2017: Ecancermedicalscience
https://www.readbyqxmd.com/read/28188812/epigenetics-in-cancer-fundamentals-and-beyond
#8
REVIEW
Subhankar Biswas, C Mallikarjuna Rao
Activation of oncogenes or the deactivation of tumor suppressor genes has long been established as the fundamental mechanism leading towards carcinogenesis. Although this age old axiom is vastly accurate, thorough study over the last 15years has given us unprecedented information on the involvement of epigenetic in cancer. Various biochemical pathways that are essential towards tumorigenesis are regulated by the epigenetic phenomenons like remodeling of nucleosome by histone modifications, DNA methylation and miRNA mediated targeting of various genes...
February 8, 2017: Pharmacology & Therapeutics
https://www.readbyqxmd.com/read/28160548/regulation-of-mirna-29c-and-its-downstream-pathways-in-preneoplastic-progression-of-triple-negative-breast-cancer
#9
Anjana Bhardwaj, Harpreet Singh, Kimal Rajapakshe, Kazunoshin Tachibana, Nivetha Ganesan, Yinghong Pan, Preethi H Gunaratne, Cristian Coarfa, Isabelle Bedrosian
Little is understood about the early molecular drivers of triple-negative breast cancer (TNBC), making the identification of women at risk and development of targeted therapy for prevention significant challenges. By sequencing a TNBC cell line-based breast cancer progression model we have found that miRNA-29c is progressively lost during TNBC tumorigenesis. In support of the tumor suppressive role of miRNA 29c, we found that low levels predict poor overall patient survival and, conversely, that ectopic expression of miRNA-29c in preneoplastic cell models inhibits growth...
January 30, 2017: Oncotarget
https://www.readbyqxmd.com/read/28158250/potential-roles-of-dna-methylation-in-the-initiation-and-establishment-of-replicative-senescence-revealed-by-array-based-methylome-and-transcriptome-analyses
#10
Mizuho Sakaki, Yukiko Ebihara, Kohji Okamura, Kazuhiko Nakabayashi, Arisa Igarashi, Kenji Matsumoto, Kenichiro Hata, Yoshiro Kobayashi, Kayoko Maehara
Cellular senescence is classified into two groups: replicative and premature senescence. Gene expression and epigenetic changes are reported to differ between these two groups and cell types. Normal human diploid fibroblast TIG-3 cells have often been used in cellular senescence research; however, their epigenetic profiles are still not fully understood. To elucidate how cellular senescence is epigenetically regulated in TIG-3 cells, we analyzed the gene expression and DNA methylation profiles of three types of senescent cells, namely, replicatively senescent, ras-induced senescent (RIS), and non-permissive temperature-induced senescent SVts8 cells, using gene expression and DNA methylation microarrays...
2017: PloS One
https://www.readbyqxmd.com/read/28152499/contributions-of-polyunsaturated-fatty-acids-pufa-on-cerebral-neurobiology-an-integrated-omics-approach-with-epigenomic-focus
#11
Nabarun Chakraborty, Seid Muhie, Raina Kumar, Aarti Gautam, Seshamalini Srinivasan, Bintu Sowe, George Dimitrov, Stacy-Ann Miller, Marti Jett, Rasha Hammamieh
The epigenetic landscape is vulnerable to diets. Here, we investigated the influence of different polyunsaturated fatty acids (PUFA) dietary supplements on rodents' nervous system development and functions and potential consequences to neurodegenerative disorders. Our previous nutrigenomics study showed significant impact of high n-3 PUFA-enriched diet (ERD) on synaptogenesis and various neuromodulators. The present study introduced a second equicaloric diet with n-6 PUFA balanced by n-3 PUFA (BLD). The typical lab diet with high n-6 PUFA was the baseline...
January 5, 2017: Journal of Nutritional Biochemistry
https://www.readbyqxmd.com/read/28145864/epigenetic-regulation-of-lateralized-fetal-spinal-gene-expression-underlies-hemispheric-asymmetries
#12
Sebastian Ocklenburg, Judith Schmitz, Zahra Moinfar, Dirk Moser, Rena Klose, Stephanie Lor, Georg Kunz, Martin Tegenthoff, Pedro Faustmann, Clyde Francks, Jörg T Epplen, Robert Kumsta, Onur Güntürkün
Lateralization is a fundamental principle of nervous system organization but its molecular determinants are mostly unknown. In humans, asymmetric gene expression in the fetal cortex has been suggested as the molecular basis of handedness. However, human fetuses already show considerable asymmetries in arm movements before the motor cortex is functionally linked to the spinal cord, making it more likely that spinal gene expression asymmetries form the molecular basis of handedness. We analyzed genome-wide mRNA expression and DNA methylation in cervical and anterior thoracal spinal cord segments of five human fetuses and show development-dependent gene expression asymmetries...
February 1, 2017: ELife
https://www.readbyqxmd.com/read/28143871/role-of-host-microrna-hsa-mir-139-3p-in-hpv-16-induced-carcinomas
#13
Malay Kr Sannigrahi, Rajni Sharma, Varinder Singh, Naresh K Panda, Vidya Rattan, Madhu Khullar
PURPOSE: Human papillomavirus 16 (HPV-16) is important risk factor in Head and Neck Cancer (HNC). Studies suggest that microRNAs play an important role in cancer, however, their role in HPV mediated oncogenesis remains largely unknown. We investigated the role of microRNAs with HPV-16 as putative target in HPV-16 mediated cancers. EXPERIMENTAL DESIGN: Using in-silico tools, we identified microRNAs with putative binding sequences on HPV-16 mRNAs. Hsa-miR-139-3p was identified as best candidate miRNA by luciferase reporter assay and was found to be significantly down-regulated in HPV-16 positive tissues and cell lines...
January 31, 2017: Clinical Cancer Research: An Official Journal of the American Association for Cancer Research
https://www.readbyqxmd.com/read/28130225/cellular-model-of-colon-cancer-progression-reveals-signatures-of-mrnas-mirna-lncrnas-and-epigenetic-modifications-associated-with-metastasis
#14
Matjaz Rokavec, David Horst, Heiko Hermeking
Here we developed and comprehensively characterized a cellular model of colon cancer progression consisting of four defined derivatives of a colon cancer cell line that resulted from consecutive epithelial-mesenchymal and mesenchymal-epithelial transitions (EMT/MET) and phenotypically recapitulate the metastatic cascade. Initial EMT was induced by prolonged exposure to IL-6, a cytokine also generated by the tumor-stroma. Genome-wide characterization of transcriptional (mRNA, miRNA, lncRNA) and epigenetic (DNA methylation, H3K4me3, H3K79me3, and H3K27me3 histone modifications) profiles of the cell derivatives, combined with correlative analyses of expression, methylation, and clinical data from the TCGA-COAD database gave insights into the molecular basis of their phenotypic changes...
January 27, 2017: Cancer Research
https://www.readbyqxmd.com/read/28124972/selecting-the-most-appropriate-time-points-to-profile-in-high-throughput-studies
#15
Michael Kleyman, Emre Sefer, Teodora Nicola, Celia Espinoza, Divya Chhabra, James S Hagood, Naftali Kaminski, Namasivayam Ambalavanan, Ziv Bar-Joseph
Biological systems are increasingly being studied by high throughput profiling of molecular data over time. Determining the set of time points to sample in studies that profile several different types of molecular data is still challenging. Here we present the Time Point Selection (TPS) method that solves this combinatorial problem in a principled and practical way. TPS utilizes expression data from a small set of genes sampled at a high rate. As we show by applying TPS to study mouse lung development, the points selected by TPS can be used to reconstruct an accurate representation for the expression values of the non selected points...
January 26, 2017: ELife
https://www.readbyqxmd.com/read/28123699/epigenetic-control-of-cancer-by-neuropeptides
#16
Karina Galoian, Parthik Patel
Neuropeptides act as neurohormones, neurotransmitters and/or neuromodulators. Neuropeptides maintain physiological homeostasis and are paramount in molecular mechanisms of disease progression and regulation, including in cancer. Neuropeptides, by their definition, originate and are secreted from the neuronal cells, they are able to signal to neighboring cells or are released into the blood flow, if they act as neurohormones. The majority of neuropeptides exert their functions through G protein-coupled receptors, with certain exceptions...
January 2017: Biomedical Reports
https://www.readbyqxmd.com/read/28123563/microrna-101-suppresses-progression-of-lung-cancer-through-the-pten-akt-signaling-pathway-by-targeting-dna-methyltransferase-3a
#17
Lumin Wang, Jiayi Yao, Hongfei Sun, Kang He, Dongdong Tong, Tusheng Song, Chen Huang
It is well established that transcriptional silencing of critical tumor suppressor genes by DNA methylation is a fundamental process in the initiation of lung cancer. However, the involvement of microRNAs (miRNAs) in restoring abnormal DNA methylation patterns in lung cancer is not well understood. Therefore, and since miRNA-101 is complementary to the 3'-untranslated region of DNA methyltransferase 3A (DNMT3A), we investigated whether miRNA-101 could restore normal DNA methylation patterns in lung cancer cell lines...
January 2017: Oncology Letters
https://www.readbyqxmd.com/read/28120717/understanding-epigenetic-alterations-in-alzheimer-s-and-parkinson-s-disease-towards-targeted-biomarkers-and-therapies
#18
Filippo Ciceri, David Rotllant, Tamara Maes
BACKGROUND: Alzheimer's and Parkinson's disease represent the two most common neurodegenerative disorders, affecting an increasing number of patients worldwide. Population ageing and lack of effective therapies and biomarkers strongly contribute to the socio-economical impact of these conditions. MESSAGE AND CONCLUSION: The aim of the review is to present a summary of the discoveries made on the epigenetics of Alzheimer's and Parkinson's disease, with a special focus on the recent advances towards the identification of new targeted therapies and biomarkers...
January 24, 2017: Current Pharmaceutical Design
https://www.readbyqxmd.com/read/28113782/cancer-subtype-discovery-based-on-integrative-model-of-multigenomic-data
#19
Shu-Guang Ge, Junfeng Xia, Wen Sha, Chun-Hou Zheng
One major goal of large-scale cancer omics study is to understand molecular mechanisms of cancer and find new biomedical targets. To deal with the high-dimensional multidimensional cancer omics data (DNA methylation, mRNA expression, etc.), which can be used to discover new insight on identifying cancer subtypes, clustering methods are usually used to find an effective low-dimensional subspace of the original data and then cluster cancer samples in the reduced subspace. However, due to data-type diversity and big data volume, few methods can integrate these data and map them into an effective low-dimensional subspace...
October 26, 2016: IEEE/ACM Transactions on Computational Biology and Bioinformatics
https://www.readbyqxmd.com/read/28112397/interplay-between-the-mirnome-and-the-epigenetic-machinery-implications-in-health-and-disease
#20
REVIEW
Shagun Poddar, Devesh Kesharwani, Malabika Datta
Epigenetics refers to functionally relevant genomic changes that do not involve changes in the basic nucleotide sequence. Majorly, these are of two types- DNA methylation and histone modifications. Small RNA molecules called miRNAs are often thought to mediate post-transcriptional epigenetic changes by mRNA degradation or translational attenuation. While DNA methylation and histone modifications have their own independent effects on various cellular events, several reports are suggestive of an obvious interplay between these phenomena and the miRNA regulatory program within the cell...
January 23, 2017: Journal of Cellular Physiology
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