Herwig++ 2.0 Release Note

A new release of the Monte Carlo program Herwig++ (version 2.0) is now available. This is the first version of the program which can be used for hadron-hadron physics and includes the full simulation of both initial- and final-state QCD radiation.Comment: Source code and additional information available at http://hepforge.cedar.ac.uk/herwig

The splicing landscape is globally reprogrammed during male meiosis

Meiosis requires conserved transcriptional changes, but it is not known whether there is a corresponding set of RNA splicing switches. Here, we used RNAseq of mouse testis to identify changes associated with the progression from mitotic spermatogonia to meiotic spermatocytes. We identified ∼150 splicing switches, most of which affect conserved protein-coding exons. The expression of many key splicing regulators changed in the course of meiosis, including downregulation of polypyrimidine tract binding protein (PTBP1) and heterogeneous nuclear RNP A1, and upregulation of nPTB, Tra2β, muscleblind, CELF proteins, Sam68 and T-STAR. The sequences near the regulated exons were significantly enriched in target sites for PTB, Tra2β and STAR proteins. Reporter minigene experiments investigating representative exons in transfected cells showed that PTB binding sites were critical for splicing of a cassette exon in the Ralgps2 mRNA and a shift in alternative 5′ splice site usage in the Bptf mRNA. We speculate that nPTB might functionally replace PTBP1 during meiosis for some target exons, with changes in the expression of other splicing factors helping to establish meiotic splicing patterns. Our data suggest that there are substantial changes in the determinants and patterns of alternative splicing in the mitotic-to-meiotic transition of the germ cell cycle

Peptide-Based Coacervate-Core Vesicles with Semipermeable Membranes

Coacervates droplets have long been considered as potential protocells to mimic living cells. However, these droplets lack a membrane and are prone to coalescence, limiting their ability to survive, interact, and organize into higher-order assemblies. This work shows that tyrosine-rich peptide conjugates can undergo liquid–liquid phase separation in a well-defined pH window and transform into stable membrane-enclosed protocells by enzymatic oxidation and cross-linking at the liquid–liquid interface. The oxidation of the tyrosine-rich peptides into dityrosine creates a semipermeable, flexible membrane around the coacervates with tunable thickness, which displays strong intrinsic fluorescence, and stabilizes the coacervate protocells against coalescence. The membranes have an effective molecular weight cut-off of 2.5 kDa, as determined from the partitioning of small dyes and labeled peptides, RNA, and polymers into the membrane-enclosed coacervate protocells. Flicker spectroscopy reveals a membrane bending rigidity of only 0.1kBT, which is substantially lower than phospholipid bilayers despite a larger membrane thickness. Finally, it is shown that enzymes can be stably encapsulated inside the protocells and be supplied with substrates from outside, which opens the way for these membrane-bound compartments to be used as molecularly crowded artificial cells capable of communication or as a vehicle for drug delivery.publishedVersio

HERWIG 6.4 Release Note

A new release of the Monte Carlo program HERWIG (version 6.4) is now available. The main new features are: spin correlations between the production and decay of heavy fermions, i.e. top quarks, tau leptons and SUSY particles; polarization effects in SUSY production processes in lepton-lepton collisions; an interface to TAUOLA for tau decays; MSSM Higgs processes in lepton-lepton collisions

Herwig++ 2.1 Release Note

A new release of the Monte Carlo program Herwig++ (version 2.1) is now available. This version includes a number of significant improvements including: an eikonal multiple parton-parton scattering model of the underlying event; the inclusion of Beyond the Standard Model (BSM) physics; and a new hadronic decay model tuned to LEP data. This version of the program is now fully ready for the simulation of events in hadron-hadron collisions

Herwig++ Status Report

Herwig++ is the successor of the event generator HERWIG. In its present version 2.2.1 it provides a program for full LHC event generation which is superior to the previous program in many respects. We briefly summarize its features and describe present work and some future plans

Les Houches 2015: Physics at TeV Colliders Standard Model Working Group Report

This Report summarizes the proceedings of the 2015 Les Houches workshop on Physics at TeV Colliders. Session 1 dealt with (I) new developments relevant for high precision Standard Model calculations, (II) the new PDF4LHC parton distributions, (III) issues in the theoretical description of the production of Standard Model Higgs bosons and how to relate experimental measurements, (IV) a host of phenomenological studies essential for comparing LHC data from Run I with theoretical predictions and projections for future measurements in Run II, and (V) new developments in Monte Carlo event generators.Comment: Proceedings of the Standard Model Working Group of the 2015 Les Houches Workshop, Physics at TeV Colliders, Les Houches 1-19 June 2015. 227 page

Comparison of senescence-associated miRNAs in primary skin and lung fibroblasts.

PublishedComparative StudyJournal ArticleResearch Support, Non-U.S. Gov'tThis is the author accepted manuscript. The final version is available from Springer Verlag via the DOI in this record.MicroRNAs are non-coding RNAs with roles in many cellular processes. Tissue-specific miRNA profiles associated with senescence have been described for several cell and tissue types. We aimed to characterise miRNAs involved in core, rather than tissue-specific, senescence pathways by assessment of common miRNA expression differences in two different cell types, with follow-up of predicted targets in human peripheral blood. MicroRNAs were profiled in early and late passage primary lung and skin fibroblasts to identify commonly-deregulated miRNAs. Expression changes of their bioinformatically-predicted mRNA targets were then assessed in both cell types and in human peripheral blood from elderly participants in the InCHIANTI study. 57/178 and 26/492 microRNAs were altered in late passage skin and lung cells respectively. Three miRNAs (miR-92a, miR-15b and miR-125a-3p) were altered in both tissues. 14 mRNA targets of the common miRNAs were expressed in lung and skin fibroblasts, of which two demonstrated up-regulation in late passage skin and lung cells (LYST; p = 0.02 [skin] and 0.02 [lung] INMT; p = 0.03 [skin] and 0.04 [lung]). ZMPSTE24 and LHFPL2 demonstrated altered expression in late passage skin cells only (p = 0.01 and 0.05 respectively). LHFPL2 was also positively correlated with age in peripheral blood (p value = 6.6 × 10(-5)). We find that the majority of senescence-associated miRNAs demonstrate tissue-specific effects. However, miRNAs showing common effects across tissue types may represent those associated with core, rather than tissue-specific senescence processes.The authors would like to acknowledge Dr Jonathan Locke for help and advice regarding the miRNA analysis and Mr Ben Lee for technical assistance. This work was supported internal funds from the University of Exeter Medical School. TvZ acknowledges funding from BBSRC Grant reference BB/I020748/1. SNG acknowledges funding from the Addison Wheeler Trust, Durham University. PvDW was supported by an Erasmus fellowship