Predictors of global methylation levels in blood DNA of healthy ...
Background Estimates of global DNA methylation from repetitive DNA elements, such as Alu and LINE-1, have been increasingly used in epidemiological investigations because of their relative low-cost, high-throughput and quantitative results. Nevertheless, determinants of these methylation measures in healthy individuals are still largely unknown. The aim of this study was to examine whether age, gender, smoking habits, alcohol drinking and body mass index (BMI) are associated with Alu or LINE-1 methylation levels in blood leucocyte DNA of healthy individuals. Methods Individual data from five [more...]
Date: 2010-09-16 05:22:51
DNA methylation analysis of multiple tissues from newborn twins ...
DNA methylation analysis of multiple tissues from newborn twins reveals both genetic and intrauterine components to variation in the human neonatal epigenome Miina Ollikainen1,2, Katherine R. Smith3, Eric Ji-Hoon Joo1,2, Hong Kiat Ng1,2, Roberta Andronikos1,2, Boris Novakovic1,2, Nur Khairunnisa Abdul Aziz1,2, John B. Carlin2,3, Ruth Morley1,2, Richard Saffery1,2,* and Jeffrey M. Craig1,2,* 1Developmental Epigenetics, Murdoch Childrens Research Institute, Royal Children’s Hospital, Parkville, Victoria 3052, Australia 2Department of Paediatrics, University of Melbourne, Parkville, [more...]
Date: 2010-08-10 12:59:39
The role of EZH2 and DNA methylation in the silencing of the ...
Conversely, downregulation of RUNX3 mRNA in the same tumours was associated with RUNX3 DNA methylation (P < 0.05). In cell lines, knockdown of EZH2 removed the repressive chromatin marks from RUNX3 but did not result in RUNX3 re-expression. However, it prevented the re-silencing of RUNX3 after the removal of demethylating agents. In conclusion, DNA methylation is primarily responsible for the transcriptional silencing of RUNX3 in CRC, but EZH2 and histone methylation are necessary for its methylation-dependent re-silencing after the removal of demethylating agents. These results would predict [more...]
Date: 2010-07-14 07:00:00
Kinetics of Methylation by EcoP1I DNA Methyltransferase
EcoP1I DNA MTase catalyzes the transfer of methyl groups using a distributive mode of methylation on DNA containing more than one recognition site. A chemical modification of EcoP1I DNA MTase using N-ethylmaleimide resulted in an ... The 1948 bp long M.EcoP1I gene was amplified by a polymerase chain reaction (PCR) using pVK1 construct containing a 2 kb long EcoP1I mod gene as a template with Phusion DNA polymerase, using the forward primer and reverse primer (Table 1) [more...]
Date: 2010-08-23 20:33:16
Epigenetic regulation of CpG promoter methylation in invasive ...
Epigenetic modifications, specifically DNA methylation, are key events regulating the process of normal human development. To determine the specific methylation pattern in these invasive prostate cells, and if any developmental genes were being differentially regulated, we analyzed differences in global CpG promoter methylation. Results: Differentially methylated genes were determined and select genes were chosen for additional analyses. The non-receptor tyrosine kinase BMX and transcription factor SOX1 were found to play a significant role in invasion. Ingenuity pathway analysis revealed the [more...]
Date: 2010-10-07 00:00:00
PubMed: DNA methylation epigenotypes in breast cancer molecular ...
Using all-subset selection method, we identified the most subtype predictive methylation profiles in multivariable logistic regression analysis. RESULTS: The approach efficiently recognized 15 individual CpG loci differentially methylated in breast cancer tumor subtypes. We further identify novel subtype specific epigenotypes which clearly demonstrate the differences in the methylation profiles of basal-like and human epidermal growth factor 2 (HER2)-overexpressing tumors. CONCLUSIONS: Our results provide evidence that well defined DNA methylation profiles enables breast cancer subtype [more...]
Date: 2010-10-06 10:10:41
see the world from science lens: Nature Biotechnology Contents ...
Genetic testing for rare heart conditions might someday expand to more common cardiac ailments. Already there are signs testing is dramatically changing how some conditions are treated and doctors' definition of who a patient is. .... Methods for profiling DNA methylation differ in the physical principles used to detect modified cytosines. Harris et al. compare the performances of four sequencing-based technologies for genome-wide analysis of DNA methylation and combine [more...]
Date: 2010-10-13 19:53:00
Role of DNA methylation in multiple myeloma blood cancer identified
DNA methylation -- a modification of DNA linked to gene regulation -- is altered with increasing severity in a blood cancer called multiple myeloma, according to a new study.Read more: Yahoo! News Search Results for Multiple [more...]
Date: 2010-09-30 15:22:00
MTHFR A1298C polymorphism and idiopathic male infertility Singh K ...
The enzyme methylenetetrahydrofolate reductase (MTHFR) catalyses the formation of folate intermediates that are vital for DNA synthesis and methylation reactions. C677T and A1298C variants of MTHFR result in reduced plasma folate and increase the susceptibility to various multifactorial disorders. We have already shown that homozygosity for 677 (C ®T) mutation in the MTHFR gene, is a risk factor for idiopathic male infertility in an Indian population. Aim: Recently, we showed that homozygosity for the 677(C;T) mutation in the MTHFR gene is a risk factor for idiopathic male infertility and [more...]
Date: 2010-10-08 20:51:33
DNA Methylation Analysis Determines the High Frequency of Genic ...
We conducted a study to assess differential CpG methylation at 1,500 genic loci during MM progression and profiled CD138+ plasma cells from MGUS, SMM, and MM specimens; human myeloma cell lines; and normal plasma cell (NPC) samples. We showed that the number of differentially methylated loci (DML) increased with tumor grade, and the vast majority were due to hypomethylation. Hierarchical clustering analysis revealed samples that coclustered tightly with NPC. These cases, referred to as “normal-like,” contained significantly fewer DML when compared with their non–normal-like counterparts [more...]
Date: 2010-09-01 04:07:46
Epigenetic Transgenerational Actions of Vinclozolin on Promoter ...
A methylated DNA immunoprecipitation with methyl-cytosine antibody followed by a promoter tilling microarray (MeDIP-Chip) procedure was used to identify 52 different regions with statistically significant altered methylation in the sperm promoter epigenome. Mass spectrometry bisulfite analysis was used to map the CpG DNA methylation and 16 differential DNA methylation regions were confirmed, while the remainder could not be analyzed due to bisulfite technical limitations. Analysis of these validated regions identified a consensus DNA sequence (motif) that associated with 75% of the promoters. [more...]
Date: 2010-10-02 03:04:02
TGen-Mayo Clinic study discovers role of DNA methylation in ...
Advertisers... Medical Software - EMR and Medical Billing Software Reviews EMR Consultant - Free Comparison of Hundreds of EMR products Dragon Medical - Discounts and Training on the world’s most popular Speech Recognition Software Physician Marketing - Internet marketing for physicians and doctors Discount Medical Supplies - Discount medical and office supplies Light Therapy Light Boxes - light boxes for light therapy to treat seasonal affective disorder and winter depression. Breast Cancer Treatment - Breast Cancer Treatment Medical Supplies - Medical [more...]
Date: 2010-09-30 04:00:00
Urinary isoflavone phytoestrogens in German children and ...
Tһе results frοm tһе urinary biomarker analysis indicate isoflavone exposures аt quite variable levels іח German children: Analyte concentrations іח over 500 urine samples cover tһе range reported previously іח adults οח typical German diet аחԁ wіtһ soy intake. ... Previous studies һаνе demonstrated tһаt tһіѕ diet perturbs DNA methylation bу causing a profound loss οf global cytosine methylation, predominantly аt heavily methylated repetitive sequences. [more...]
Date: 2010-10-13 16:46:26
Researchers link genes and genetic modifications to body mass ...
This means that children can inherit genetic information from their parents other than the sequence of their DNA. In this study, the Hopkins scientists focused on DNA methylation, which causes changes in both DNA and proteins, [more...]
Date: 2010-09-30 04:00:00
APC gene mutation affects DNA methylation in colon cancer: Research
Colon Cancer And Colon Cancer Prevention Lung Cancer – A Deadly Result Due To Smoking | ONLY-HEALTHY.COM Low-Dose Aspirin May Reduce Colon Cancer Risk (HealthDay) | epitrial.com APC gene mutation affects DNA methylation in colon cancer: Research | Drug Treatment Helpline Mechanism behind demethylation pinpointed in APC gene mutants | Medical Education Watch The Science and Technology Blog » Blog Archive » Mechanism behind demethylation pinpointed in APC gene [more...]
Date: 2010-09-18 20:21:15
Epigenomics for Cancer Research
If the tumor suppressor gene is being silenced because of DNA methylation, the cancer cells will easy to grow. We have to know the sites of DNA methylation to design the therapy for cancer patients. From that, we can fully utilize this [more...]
Date: 2010-09-23 23:59:37
Genome-Wide DNA Methylation Maps in Follicular Lymphoma Cells ...
Methodology/Principal Findings We performed methylation-enriched genome-wide bisulfite sequencing of FL cells and normal CD19+ B-cells using 454 sequencing technology. The methylated DNA fragments were enriched with methyl-binding proteins, treated with bisulfite, and sequenced using the Roche-454 GS FLX sequencer. The total number of bases covered in the human genome was 18.2 and 49.3 million including 726,003 and 1.3 million CpGs in FL and CD19+ B-cells, respectively. 11,971 and 7,882 methylated regions of interest (MRIs) were identified respectively. The genome-wide distribution of these [more...]
Date: 2010-09-30 21:12:52
Critiquing LaPlant et al, 2010, in Nature Neuroscience, Part 1 ...
What is blown up at the bottom is one of those specific base pairs, cysteine. What DNA methylation does is put a methyl group (highlighted in yellow) onto the cysteine. It doesn't look like much, but this methyl group is very important. [more...]
Date: 2010-10-13 10:54:28
DNA alterations from smoking linked to cancer « A Man With A Ph.D.
DNA methylation is a non-genetic – epigenetic – process that alters the expression patterns of genes without changing the DNA sequence.Methylation of certain tumor suppressor genes has been linked to cancer. From this research, it appears that smoking methylates timor genes. This methylation can lead to cancers. Nice to finally have a reasonable model for how and why so many people got cancer from smoking. Or chewing [more...]
Date: 2010-10-11 01:10:22
DNA Methylation Analysis Determines the High Frequency of Genic ...
Dear Colleagueaaa, Here is an article you may find interesting. Elucidation of a C-Rich Signature Motif in Target mRNAs of RNA-Binding Protein TIAR. http://biowizard.com/abstract.php?pmid=17682065 Kim HS, Kuwano Y, Zhan M, Pullmann R Jr, Mazan-Mamczarz K, Li H, Kedersha N, Anderson P, Wilce MC, Gorospe M, Wilce JA Mol Cell Biol. 2007 Aug 6; PMID: 17682065 BioWizard [more...]
Date: 2010-08-26 23:27:02
Methylation Test May Aid Colon Cancer Diagnosis (CME/CE) | Discuss ...
To develop a more sensitive test for DNA methylation, investigators employed a form of technology known as BEAMing (beads, emulsion, amplification, and magnetics). They performed PCR amplification of individual DNA fragments covalently linked to magnetic beads suspended in water-based nanoparticles immersed in oil droplets. The beads contained a DNA sequence specific for exon 1 of the vimentin gene, which is hypermethylated in colon cancer. Following PCR amplification, the beads were hybridized by means of fluorescent probes specific to the state of methylation and then sorted and analyzed by [more...]
Date: 2010-10-09 11:00:27
Hormone therapy, DNA methylation and colon cancer -- Wu et al. 31 ...
Risk of colon cancer was unrelated to past ET or EPT use. We explored if current use of menopausal hormones is associated with DNA methylation of estrogen receptor (ESR1 and ESR2), progesterone receptor and other genes in the colonic [more...]
Date: 2010-01-11 08:00:00
DNA Methylation And Cancer Therapy by MOSHE SZYF (Hardcover ...
DNA Methylation And Cancer Therapy by MOSHE SZYF (Hardcover – Plenum Pub Corp) Best Prices. TextbookX.com, $ 128.70 + $ 3.99 shipping. [more...]
Date: 2010-09-30 19:59:21
Insights into watermelon genetic diversity
Insights into watermelon genetic diversity by Jeremy on September 29, 2010 There’s no doubt that most of the time when we non-experts think of genetic diversity in DNA terms, we think about alterations in the actual DNA sequence. Change the genetic code and there’s a chance you change the nature of a gene and as a result change the outward appearance, the phenotype, of an organism. There have been lots of studies relating the differences among species to differences in the DNA code of this sort, but far fewer looking at the differences among varieties of a single species. Amnon Levi and [more...]
Date: 2010-09-29 05:55:20
ReportsandReports – Epigenetic Drug & Diagnostic Pipelines: DNA ...
Browse complete Report Epigenetic Drug & Diagnostic Pipelines: DNA Methylation, HDAC Inhibitors, and Emerging New Targets Report. Browse all CHI Healthtech Market Research Reports. Epigenetics is a rapidly growing field with promising [more...]
Date: 2010-10-01 03:50:30
Genomewide DNA methylation analysis reveals novel targets for drug ...
We analyzed genomewide methylation in MCL patients with the HELP (HpaII tiny fragment Enrichment by Ligation–mediated PCR) assay and found significant aberrancy in promoter methylation patterns compared with normal NBCs. [more...]
Date: 2010-08-19 16:02:55
Variation, patterns, and temporal stability of DNA methylation ...
Talens, RP, Boomsma, DI, Tobi, EW, Kremer, D., Jukema, JW, Willemsen, G., Putter, H., Slagboom, PE, Heijmans, BT Variation, patterns, and temporal stability of DNA methylation: considerations for epigenetic [more...]
Date: 2010-08-31 07:02:19
Chromatin, Histones & Cathepsin; PMAP
2008 Oct 17;135(2) www.proteolysis.org Chromatin is the complex basis of DNA and protein that makes up chromosomes. Changes in chromatin structure are affected by chemical modifications of histone proteins such as methylation (DNA and proteins) and acetylation (proteins), and by non-histone, DNA-binding [more...]
Date: 2010-10-13 12:49:22
Innovations In Epigenetics: Advances In Technologies, Diagnostics ...
Figure 2.6: Schematic of key technologies used in epigenetics 36. Figure 2.7: Schematic of ChIP technology 37. Figure 2.8: Epigenomics AG methylation specific PCR (MSP) methods 42. Figure 3.9: DNA methylation targets for epigenetic [more...]
Date: 2010-10-12 15:03:51
Blood -- Genomewide DNA methylation analysis reveals novel targets ...
Treatment of MCL cell lines with the DNA methyltransferase inhibitor decitabine resulted in reversal of aberrant hypermethylation and synergized with the histone deacetylase inhibitor suberoylanilide hydroxamic acid in induction of the [more...]
Date: 2010-08-19 16:02:55
DNA Methylation in Lung Cancer — NEJM
Correspondence from The New England Journal of Medicine — DNA Methylation in Lung [more...]
Date: 2008-06-04 20:55:25
DNA Methylation-A key tool to fight cancer - Info Barrel
Articles on human practices, values and life. These include topics such as Sports, Cooking, Fashion and [more...]
Date: 2010-09-24 20:31:19
Friday Round Up – click to activate links
The Dnmt3a PWWP domain reads histone 3 lysine 36 trimethylation and guides DNA methylation. Dhayalan A, Rajavelu A, Rathert P, Tamas R, Jurkowska RZ, Ragozin S, Jeltsch A. J Biol Chem. 2010 Aug 20;285(34):26114-20. Epub 2010 Jun 11. [more...]
Date: 2010-10-08 20:08:41
Illumina to Announce Third Quarter 2010 Financial Results on ...
We provide innovative sequencing and array-based solutions for genotyping, copy number variation analysis, methylation studies, gene expression profiling, and low-multiplex analysis of DNA, RNA and protein. We also provide tools and services that are fueling advances in consumer genomics and diagnostics. Our technology and products accelerate genetic analysis research and its application, paving the way for molecular medicine and ultimately transforming healthcare. [more...]
Date: 2010-10-13 04:08:35
GMO Pundit a.k.a. David Tribe: Genome sequence of Peruvian wild ...
We provide innovative sequencing and array-based solutions for genotyping, copy number variation analysis, methylation studies, gene expression profiling, and low-multiplex analysis of DNA, RNA and protein. We also provide tools and services that are fueling advances in consumer genomics and diagnostics. Our technology and products accelerate genetic analysis research and its application, paving the way for molecular medicine and ultimately transforming [more...]
Date: 2010-09-22 23:46:00
Nanotechnology Now - Press Release: "INBT launches Johns Hopkins ...
Methylation adds a chemical group to the exterior of the DNA and is a biomarker frequently associated with cancer. A second project, led by Anirban Maitra, associate professor of pathology and oncology at the School of Medicine and the [more...]
Date: 2010-10-05 15:42:48
CNS Tobacco Control Initiative: New study confirms smoking, cancer ...
The Times of India, New Delhi, Delhi EXCERPT: Scientists have suspected that smoking causes so-called epigenetic changes, such as methylation, which alter gene expression without causing changes to the actual DNA sequence. Read more -------------------------------------------- Tambakoo Kills News Bulletin Monday, 11 October 2010 [more...]
Date: 2010-10-11 10:32:00
Study discovers role of DNA methylation in multiple myeloma blood ...
Report finds development of multiple myeloma is tied to [more...]
Date: 2010-10-07 07:00:00
Abstract | Dynamic instability of genomic methylation patterns in ...
© 2010 Ooi et al; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. AbstractBackground Genomic methylation patterns are established during gametogenesis, and perpetuated in somatic cells by faithful maintenance methylation. There have been previous indications that genomic methylation patterns may be less stable in embryonic stem (ES) cells [more...]
Date: 2010-09-24 00:00:00
Variants of PCR (1)
The bacteriophage T4 DNA polymerase was also tested shortly after the first reports of PCR. It has a higher fidelity of replication than the Klenow fragment. Since it is also destroyed by heat, it has seen little use since the development of thermostable polymerases. The DNA polymerase from Thermus aquaticus (or Taq), was the first thermostable polymerase used in PCR, and is still the one most commonly used. The enzyme can be isolated from its 'native' bacterial source, or from a cloned gene expressed in E. coli. The Stoffel fragment is produced from a truncated gene for Taq polymerase, [more...]
Date: 2008-09-11 03:56:00
IVF News - Sperm linked to ART-related genetic disorders
A process called DNA methylation is critical to imprinting. A team led by Dr Takahiro Arima from Tohoku University examined DNA methylation in 78 six to nine-week-old embryos and fetuses conceived using ART, and 38 conceived without ART. They also examined the father's sperm and DNA. In seven of 17 cases where there was abnormal DNA methylation in the ART sample, identical alterations were present in the father's sperm. The abnormal DNA methylation in the sperm was associated with variations in a gene coding for DNMT3L - a key enzyme in DNA methylation associated with abnormal imprinting and [more...]
Date: 2009-12-07 08:00:00
NMCLE PART -2 NMLE QUESTION PART 2 , NMLE EXAM 2010 part -2
During replication of DNA, which one of the following enzymes polymerizes the Okazaki fragments? 1. DNA Polymerase I 2. DNA Polymerase II 3. DNA Polymerase III 4. RNA Polymerase I 178. During phagocytosis, the metabolic process called respiratory burst involves the activation of: 1. Oxidase 2. Hydrolase 3. Peroxidase 4. Dehydrogenase 179. Which one of the following is the complementary sequence of 5' TTAAGCTAC 3â? 1. 5â GTACGCTTAA 3â 2. 5â AATTCGCATG 3â 3. 5â CATGCGAATT 3â 4. 5â TTAAGCGTAC 3â 180. Base substitution [more...]
Date: 2010-09-02 16:44:36
Familial Cancer Associated with a Polymorphism in ARLTS1 — NEJM
George Adrian Calin, M.D., Ph.D., Francesco Trapasso, M.D., Ph.D., Masayoshi Shimizu, B.S., Calin Dan Dumitru, M.D., Ph.D., Sai Yendamuri, M.D., Andrew K. Godwin, Ph.D., Manuela Ferracin, Ph.D., Guido Bernardi, Ph.D., Devjani Chatterjee, Ph.D., Gustavo Baldassarre, M.D., Shashi Rattan, B.S., Hansjuerg Alder, Ph.D., Hideaki Mabuchi, M.D., Takeshi Shiraishi, M.D., Lise Lotte Hansen, Ph.D., Jens Overgaard, M.D., D.M.Sc., Vlad Herlea, M.D., Francesca Romana Mauro, M.D., Guillaume Dighiero, M.D., Benjamin Movsas, M.D., Laura Rassenti, Ph.D., Thomas Kipps, M.D., Ph.D., Raffaele Baffa, M.D., Ph.D., [more...]
Date: 2009-06-01 21:13:36
Drinking Purified Water | home made water filtration system
It can cause mutations by altering DNA, suppress immune system function and interfere with the natural controls of cell growth. Chlorinated water can destroy polyunsaturated fatty acids and vitamin E in the body while generating toxins capable of free radical damage (oxidation); Chlorinated water destroy much of the intestinal flora, the friendly bacteria that help in the digestion of food and protect the body from harmful pathogens. Tap water may contain: Lead from soldered pipes. Lead can result in anemia, low birth weight in children, increase blood pressure in adults Microbiological [more...]
Date: 2007-09-12 07:00:00
Complete Genomics 2010 IPO | InvestorPlace
Complete Genomics Inc. plans to raise up to $86.2 million in an initial public offering to help fund improvements and expansion of its DNA sequencing technology. Complete Genomics will join the Nasdaq exchange after its 2010 IPO, and will trade under the ticker GNOM after the stock offering. The Mountain View, Calif., company said in its SEC registration statement that it has developed and commercialized “an innovative DNA sequencing platform that we believe will become the preferred solution for complete human genome sequencing and analysis.” Price is key for its assembly-line [more...]
Date: 2010-08-06 15:43:34
Genome-wide Analysis of DNA Methylation and Gene Expression ...
Alterations in DNA methylation have been proposed as a mechanism for the complex toxicological effects of arsenic. In this study, whole-genome DNA methylation and gene expression changes were evaluated in lungs from female mice exposed for 90 days to 50 ppm arsenate (As) in drinking water. DNA methylation changes were measured using reduced representation bisulfite deep sequencing. Differential methylation was observed in approximately 700 and 1900 start and transcribed regions, respectively. The start regions showed bias toward decreased methylation. No bias was observed in the transcribed [more...]
Date: 2010-07-28 07:00:00
DNA word search puzzle
Here is a free DNA word search puzzle for you to download and print. DNA word search puzzle. The word search puzzle contains the following words: rna; strand; helix; replication; polymerase; genome; recombination; organism; methylation [more...]
Date: 2010-07-03 09:46:13
Epigenetics Papers: A Genomic Sequencing Protocol that Yields a ...
Genomic sequencing protocols, which have been developed to ascertain the methylation status of selected regions within genes, utilize the Maxam and Gilbert chemical cleavage reactions [. ... To address these problems, we have developed a genomic sequencing method that provides positive identification and localization of 5-methylcytosine in genomic DNA. The method is based on sodium bisulfite-mediated conversion of cytosine to uracil in single-stranded DNA, followed by PCR [more...]
Date: 2007-03-13 21:09:00
Epigenetics Papers: DNA Methylation Analysis by MethyLight Technology
Authors discussed each step for this procedure: (1) determining the site of interest for methylation analysis; (2) methylation-specific primers and fluorogenic probes design; (3) genomic DNA isolation; (4) bisulfite conversion; (5) real- time methylation analysis; and (6) data processing. For primer design, some complications particular to the bisulfite modification should be taken into account: All unmethylated cytosine residues in the genome are converted this reduction in genomic complexity reduces the annealing specificity of PCR primers and fluorogenic probes, which not only [more...]
Date: 2007-08-19 01:26:00
Study reveals cancer-linked epigenetic effects of smoking ...
“DNA methylation is a type of epigenetic change that can result in tumor suppressor genes being inactivated,” said Dr Ma. “Methylation of p16 has been frequently associated with the development of cancer in many parts of the body.” Because the women were all taking part in a study of cervical neoplasia, Dr Ma used cells from cervical smears to test for methylation of p16. Her group found that women who took up smoking during the study were more than three times as likely (odds ratio of 3.67) to acquire p16 methylation. “Our study showed that compared with never-smokers, women who [more...]
Date: 2010-10-09 08:00:00