Orthocomplementation and compound systems

In their 1936 founding paper on quantum logic, Birkhoff and von Neumann postulated that the lattice describing the experimental propositions concerning a quantum system is orthocomplemented. We prove that this postulate fails for the lattice L_sep describing a compound system consisting of so called separated quantum systems. By separated we mean two systems prepared in different ``rooms'' of the lab, and before any interaction takes place. In that case the state of the compound system is necessarily a product state. As a consequence, Dirac's superposition principle fails, and therefore L_sep cannot satisfy all Piron's axioms. In previous works, assuming that L_sep is orthocomplemented, it was argued that L_sep is not orthomodular and fails to have the covering property. Here we prove that L_sep cannot admit and orthocomplementation. Moreover, we propose a natural model for L_sep which has the covering property.Comment: Submitted for the proceedings of the 2004 IQSA's conference in Denver. Revised versio

MicroRNAs Up-Regulated by CagA of Helicobacter pylori Induce Intestinal Metaplasia of Gastric Epithelial Cells

CagA of Helicobacter pylori is a bacterium-derived oncogenic protein closely associated with the development of gastric cancers. MicroRNAs (miRNAs) are a class of widespread non-coding RNAs, many of which are involved in cell growth, cell differentiation and tumorigenesis. The relationship between CagA protein and miRNAs is unclear. Using mammalian miRNA profile microarrays, we found that miRNA-584 and miRNA-1290 expression was up-regulated in CagA-transformed cells, miRNA-1290 was up-regulated in an Erk1/2-dependent manner, and miRNA-584 was activated by NF-κB. miRNA-584 sustained Erk1/2 activities through inhibition of PPP2a activities, and miRNA-1290 activated NF-κB by knockdown of NKRF. Foxa1 was revealed to be an important target of miRNA-584 and miRNA-1290. Knockdown of Foxa1 promoted the epithelial-mesenchymal transition significantly. Overexpression of miRNA-584 and miRNA-1290 induced intestinal metaplasia of gastric epithelial cells in knock-in mice. These results indicate that miRNA-584 and miRNA-1290 interfere with cell differentiation and remodel the tissues. Thus, the miRNA pathway is a new pathogenic mechanism of CagA

Structural View of a Non Pfam Singleton and Crystal Packing Analysis

Comparative genomic analysis has revealed that in each genome a large number of open reading frames have no homologues in other species. Such singleton genes have attracted the attention of biochemists and structural biologists as a potential untapped source of new folds. Cthe_2751 is a 15.8 kDa singleton from an anaerobic, hyperthermophile Clostridium thermocellum. To gain insights into the architecture of the protein and obtain clues about its function, we decided to solve the structure of Cthe_2751.The protein crystallized in 4 different space groups that diffracted X-rays to 2.37 Å (P3(1)21), 2.17 Å (P2(1)2(1)2(1)), 3.01 Å (P4(1)22), and 2.03 Å (C222(1)) resolution, respectively. Crystal packing analysis revealed that the 3-D packing of Cthe_2751 dimers in P4(1)22 and C222(1) is similar with only a rotational difference of 2.69° around the C axes. A new method developed to quantify the differences in packing of dimers in crystals from different space groups corroborated the findings of crystal packing analysis. Cthe_2751 is an all α-helical protein with a central hydrophobic core providing thermal stability via π:cation and π: π interactions. A ProFunc analysis retrieved a very low match with a splicing endonuclease, suggesting a role for the protein in the processing of nucleic acids.Non-Pfam singleton Cthe_2751 folds into a known all α-helical fold. The structure has increased sequence coverage of non-Pfam proteins such that more protein sequences can be amenable to modelling. Our work on crystal packing analysis provides a new method to analyze dimers of the protein crystallized in different space groups. The utility of such an analysis can be expanded to oligomeric structures of other proteins, especially receptors and signaling molecules, many of which are known to function as oligomers

Geographies of development: without the poor.

Some contemporary narratives of development give privileged status to middle classes in the global South. In the face of intractable poverty, policy makers take heart from the success stories of ordinary people who have, over generations, realised and consolidated the gains of development and who embody society at its most functional. Their presumed virtues are their self‐sufficiency, their ability to articulate with the global economy, their buying power, and their good sense as responsible citizens. This, the first of three reports on geographies of development, reflects on recent research that interrogates the privileged status of middle classes in some narratives of development. As this burgeoning literature suggests, celebratory narratives elide the complex circumstances that make and unmake middle classes. Furthermore, middle class gains do not automatically translate into development for others. Indeed, efforts to centre the middle class threaten to displace, and justify the displacement of, economically marginalised groups seen as surplus to development