epigenetics

Epigenetics and ncRNA Headlines

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Chromatin Modifications in Enhancers

March 20, 2013

Enhancers serve as distal regulators of gene expression, but insights into the precise mechanisms of enhancer chromatin modifications are still lacking. In this recent review, Calo and Wysocka summarized various enhancer-associated modifications and propose how these modifications regulate enhancer activity during development. Here are some of the key topics discussed: The Enhancer Chromatin Landscape Enhancers […]

The 3D Genome: A Review into Genomic Organization and its Key Players

March 20, 2013

Our genome is not linear. Nope, it’s a three-dimensional labyrinth of regulatory nooks and crannies . Gibcus and Dekker recently published this free review that looks at the spatial hierarchy of genomic organization and how it modulates gene expression. This is a great resource for those of you looking to beef up your understanding of […]

Engineering (Epi)Genomes with CRISPR-Cas

March 14, 2013

To really figure out what genes really do, you gotta get in there and get your hands dirty. That usually means deleting or modifying genes, or other regulatory regions. In a recent “Research Highlight” article, researchers at Johns Hopkins reviewed the three main ways to do this, including the increasingly popular CRISPR/Cas system. To engineer […]

DNA Methylation in Cancer Goes the Distance via Enhancers

March 14, 2013

We like having all the important things close by—a stash of chocolate, a latte, and the remote control. But sometimes important things are far away. Take enhancers, for example. Enhancers are often pretty far from the genes whose transcription they are “enhancing.” And now, it turns out that DNA methylation at these enhancers can affect […]

EpiGenie Book Reviews: Epigenetics

March 11, 2013

If you’ve spent any time browsing the EpiGenie site, then you already know that we find epigenetics pretty interesting. So, of course any book with the title of Epigenetics is going to grab our attention. Epigenetics edited by Jörg Tost, gathers information from several top scientists working in various facets of epigenetics to assemble a […]

lncRNA Regulates Tumor Suppressor Two Ways

March 4, 2013

A little redundancy can be a good thing. A team of researchers led by Dr. Kevin Morris at the Scripps Institute, in La Jolla, recently showed that a little redundancy in the regulation of PTEN, a tumor suppressor gene, can be pretty useful…but also really complicated. PTENpg1, a PTEN pseudogene, regulates PTEN via both sense […]

Correcting Brain Tissue Heterogeneity with DNA Methylation

February 28, 2013

A few weeks ago, we highlighted some great work that has been very useful in helping correct for heterogeneous cell populations in blood. Now, we’ve just got wind of a clever new bioinformatics tool to correct for heterogeneity in the brain. Researchers have studied DNA methylation in brain tissue to see if there’s an association between that modification and […]

Guide: Getting Started with ChIP-Seq

February 27, 2013

Chromatin-immunoprecipitation (ChIP) followed by sequencing of the immuno-precipitated DNA is a powerful tool for the investigation of Protein:DNA interactions. To perform ChIP-seq, chromatin is isolated from cells or tissues and fragmented. Antibodies against chromatin associated proteins are used to enrich for specific chromatin fragments. The DNA is recovered, sequenced and aligned to a reference genome […]

The Ups and Downs of miRNA and MeCP2 in Fetal Brains

February 26, 2013

What goes up must come down. And in the developing human brain, when miR-483-5p levels go up, it makes MeCP2 levels go down, according to researchers in a recent report. Problems with MeCP2 cause Rett Syndrome and other neurological disorders. MeCP2 levels are low in fetal stages of development, but high after birth in the […]

High Def DNA Methylome Maps Point Out Male and Female Germ Cell Differences

February 20, 2013

What sets males and females apart? Actually, let’s not head there, but how about at the methylome level? Quite a bit it appears. In a recent paper, researchers from Japan report that male and female primordial germ cells (PGCs) have different methylomes during development—at least in mice. While these germ cells divide and move to […]

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