An ambitious EC-funded research initiative on epigenetics advancing towards systems biology 170

Highlighted articles

Catergories:

  • Special issues

  • Systems biology

  • Chromatin

  • Technical advance

  • F1000 reviewed

  • Other

  • Epigenetics

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Highlights and Preview in Molecular Cell “PARP1-PARylation Promotes Silent Locus Transmission in the Nucleolus: the Suspicion Confirmed”. Isabelle et al. Molecular Cell (2012) 45, 706-707.
Cell link

Cover page of March 30, 2012 issue.
Cell link

This work provides evidence of the role of PARP1 in heterochromatin formation providing novel insights of how epigenetic marks are transmitted during each cell cycle. It’s also featured on the cover of Molecular Cell.
Guetg, C. Scheifele, F., Rosenthal, F., Hottiger, M.O. and Santoro, R. Inheritance of silent rDNA chromatin is mediated by PARP1 via non-coding RNA. Molecular Cell (2012) 45, 790-800.
Cell link

Also includes a video of different experts explaining their definition of “epigenetics”.
sciencemag link

The March 2011 Special Issue on Epigenetics & Chromatin brings us a collection of authoritative reviews on diverse topics in this rapidly evolving field. The accompanying web focus presents additional links to related articles in this area from across Nature Publishing Group.
Nature link

In thinking about complexity, it’s frequently invoked that the whole is greater than the sum of its parts. This notion serves as one of the motivating principles of systems biology, which seeks to understand the emergent properties of complex biological systems. Among many biologists, systems biology is also synonymous with the use of particular approaches, including high-throughput techniques, large-scale integration of datasets, and computational modeling to probe system behaviors.
Cell link

In this year’s special review issue of Cell, we aim to highlight the nongenetic functions that are collectively known as “epigenetics.” This collection of essays, minireviews, and reviews presents our current knowledge of the molecular basis of epigenetic mechanisms, including the emerging role of noncoding RNAs and their role in development and disease, and discusses the still largely unknown terrain of chromatin organization.
Cell link

Comprehensive genome-wide protein-DNA interactions detected at single-nucleotide resolution. Rhee HS, Pugh BF.

Cell. 2011 Dec 9; 147(6):1408-19
Cell link

… also featured in a podcast under the “multimedia” tab.

Three-Dimensional Folding and Functional Organization Principles of the Drosophila Genome.

Sexton T, Yaffe E, Kenigsberg E, Bantignies F, Leblanc B, Hoichman M, Parrinello H, Tanay A, Cavalli G. Cell. 2012 Jan 18. [Epub ahead of print]
Cell link

New aspects of DNA methylation dynamics have been revealed with 2 new studies, including the identification of a new class that they termed low-methylated regions (LMRs) in ESCs.

Original Articles:

Stadler M. B. et al. DNA-binding factors shape the mouse methylome at distal regulatory regions.
Nature 14 Dec 2011
Nature link

Ziller M. J. et al. Genomic distribution and inter-sample variation of non-CpG methylation across human cell types PLoS Genet. 8 Dec 2011

How do genes move from one nuclear compartment to another? For Polycomb-regulated genes, it depends on which noncoding RNA is bound to PC2, explains Geoff Rosenfeld in this issue’s PaperClip.
Link to paperclip archive

Cell 2011 Nov 11;147(4):773-88.

Yang L, et. al. ncRNA- and Pc2 Methylation-Dependent Gene Relocation between Nuclear Structures Mediates Gene Activation Programs.
pubmed link

Cell Stem Cell Preview, “Guiding DNA Methylation” by Alexander Meissner
Cell Stem Cell link

Nature Genetics News and Views, “Putting the DNA back into DNA methylation” by Adrian Bird
Pubmed link

Original article:

Florian Lienert et al. Identification of genetic elements that autonomously determine DNA methylation states,
Nature Genetics, 2011 Oct 2; 43, 1091-97
Pubmed link

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