Transcription Factors Stand Up to the Methylation MachineFebruary 18, 2010Sometimes the best defense is a good offense. That appears to be the case for transcription factors (TFs) that resist de novo DNA methylation by binding to their sites in CpG islands. Although this idea has been around for awhile, a team of German and American researchers led by Michael Rehli recently provided the first […]
CpG Methyltransferases Caught in the Act-and in Real TimeFebruary 17, 2010Being “caught in the act” isn’t usually a good thing, but catching DNA methyltransferases in the act is a very good thing for epigeneticists. A team at the University of Southampton (U.K.) now reports that they have developed a reproducible, real-time fluorescent assay that will help scientists understand how these enzymes regulate themselves, interact with […]
Nature and Nurture Walking the Same Path?February 11, 2010Ever notice how it gets more interesting when there’s more than just black or white, love or hate, good or evil? The real action seems to take place in the gray areas. It seems true for methylated alleles as well. A recent paper looking into genomic imprinting found new evidence that both genomic and environmental […]
State of Methylome Analysis: Genome-Wide Methylation Techniques ReviewFebruary 11, 2010The State of the Union Address and the drama/commentaries that accompany it have come come and gone, but a fresh Nature Review produced by USC’s Peter Laird now provides the epigenetics community with a State of Methylome Analysis. For the epigenetics researcher, it is every bit as insightful but won’t take as much time to […]
Methylome Stays Fashionable Throughout DifferentiationFebruary 5, 2010Our fashion sense evolves as we do. Just as you may trade your flip-flops for a business suit as you climb the corporate ladder, DNA methylation changes its style in cells that become more committed. To size up these methylation changes during differentiation, researchers at the UCSD Department of Reproductive Medicine and GIS in Singapore […]
In Evolution, Change Is the Only (Epigenetic) ConstantFebruary 1, 2010Most of us are thrown for a loop when conditions suddenly change, but some are better able to cope than others (we still haven’t gotten used to the new Facebook format). A recent PNAS paper by Johns Hopkins’ epi-gurus Andrew Feinberg and Rafael Irizarry makes the case that some of this adaptability stems from stochastic […]
Methylation Puts Nucleosomes in the Hot SeatFebruary 1, 2010It’s no fun to get put in the “hot seat”. Whether it’s your advisor ragging on you for not having enough data; or your sweetie reminding you that you forgot your anniversary. Again. In either case, you sink lower and lower into your chair, and your muscles tighten while you take what you have coming. […]
Bisulfite Sequencing in Plants: Tips for “Going Green”January 21, 2010Figuring out human DNA methylation patterns with bisulfite sequencing can be tough, but the complexities of plant DNA methylation can turn your lab into a Little Shop of Horrors. That’s because plants methylate cytosine residues not only in the CG sequence context, but also in CHG and CHH (where H is any nucleotide but guanine). […]
Cancer Suppression is a miR-200 Family ValueJanuary 21, 2010Cancer regulation and the miR-200 cluster has been a family affair for a while now. A new article from a group at The University of Arizona highlights a couple of family members, miR-200c and miR-141, (they must be the attention-starved middle children) and how epigenetic regulation of their expression differs in normal and cancer cells. […]
Getting Amped on Bisulfite ConversionJanuary 21, 2010Some of the biggest issues associated with bisulfite conversion aren’t really related to the bisulfite conversion process itself, but rather the downstream assays interpret the base conversion. After all, if a C is converted to a U in a test tube and nothing can assay it effectively, was in really converted? OK, enough bisulfite philosophy. […]