Cdc53p acts in concert with Cdc4p and Cdc34p to control the G1 to S phase transition and identifies a conserved family of proteins

Regulation of cell cycle progression occurs in part through the targeted degradation of both activating and inhibitory subunits of the cyclin-dependent kinases. During G1, CDC4, encoding a WD-40 repeat protein, and CDC34, encoding a ubiquitin-conjugating enzyme, are involved in the destruction of these regulators. Here we describe evidence indicating that CDC53 also is involved in this process. Mutations in CDC53 cause a phenotype indistinguishable from those of cdc4 and cdc34 mutations, numerous genetic interactions are seen between these genes, and the encoded proteins are found physically associated in vivo. Cdc53p defines a large family of proteins found in yeasts, nematodes, and humans whose molecular functions are uncharacterized. These results suggest a role for this family of proteins in regulating cell cycle proliferation through protein degradation

Predictability sieve, pointer states, and the classicality of quantum trajectories

We study various measures of classicality of the states of open quantum systems subject to decoherence. Classical states are expected to be stable in spite of decoherence, and are thought to leave conspicuous imprints on the environment. Here these expected features of environment-induced superselection (einselection) are quantified using four different criteria: predictability sieve (which selects states that produce least entropy), purification time (which looks for states that are the easiest to find out from the imprint they leave on the environment), efficiency threshold (which finds states that can be deduced from measurements on a smallest fraction of the environment), and purity loss time (that looks for states for which it takes the longest to lose a set fraction of their initial purity). We show that when pointer states -- the most predictable states of an open quantum system selected by the predictability sieve -- are well defined, all four criteria agree that they are indeed the most classical states. We illustrate this with two examples: an underdamped harmonic oscillator, for which coherent states are unanimously chosen by all criteria, and a free particle undergoing quantum Brownian motion, for which most criteria select almost identical Gaussian states (although, in this case, predictability sieve does not select well defined pointer states.)Comment: 10 pages, 13 figure

Human gene copy number spectra analysis in congenital heart malformations

The clinical significance of copy number variants (CNVs) in congenital heart disease (CHD) continues to be a challenge. Although CNVs including genes can confer disease risk, relationships between gene dosage and phenotype are still being defined. Our goal was to perform a quantitative analysis of CNVs involving 100 well-defined CHD risk genes identified through previously published human association studies in subjects with anatomically defined cardiac malformations. A novel analytical approach permitting CNV gene frequency “spectra” to be computed over prespecified regions to determine phenotype-gene dosage relationships was employed. CNVs in subjects with CHD (n = 945), subphenotyped into 40 groups and verified in accordance with the European Paediatric Cardiac Code, were compared with two control groups, a disease-free cohort (n = 2,026) and a population with coronary artery disease (n = 880). Gains (≥200 kb) and losses (≥100 kb) were determined over 100 CHD risk genes and compared using a Barnard exact test. Six subphenotypes showed significant enrichment (P ≤ 0.05), including aortic stenosis (valvar), atrioventricular canal (partial), atrioventricular septal defect with tetralogy of Fallot, subaortic stenosis, tetralogy of Fallot, and truncus arteriosus. Furthermore, CNV gene frequency spectra were enriched (P ≤ 0.05) for losses at: FKBP6, ELN, GTF2IRD1, GATA4, CRKL, TBX1, ATRX, GPC3, BCOR, ZIC3, FLNA and MID1; and gains at: PRKAB2, FMO5, CHD1L, BCL9, ACP6, GJA5, HRAS, GATA6 and RUNX1. Of CHD subjects, 14% had causal chromosomal abnormalities, and 4.3% had likely causal (significantly enriched), large, rare CNVs. CNV frequency spectra combined with precision phenotyping may lead to increased molecular understanding of etiologic pathways

Linear stochastic wave-equations for continuously measured quantum systems

While the linearity of the Schr\"odinger equation and the superposition principle are fundamental to quantum mechanics, so are the backaction of measurements and the resulting nonlinearity. It is remarkable, therefore, that the wave-equation of systems in continuous interaction with some reservoir, which may be a measuring device, can be cast into a linear form, even after the degrees of freedom of the reservoir have been eliminated. The superposition principle still holds for the stochastic wave-function of the observed system, and exact analytical solutions are possible in sufficiently simple cases. We discuss here the coupling to Markovian reservoirs appropriate for homodyne, heterodyne, and photon counting measurements. For these we present a derivation of the linear stochastic wave-equation from first principles and analyze its physical content.Comment: 34 pages, Revte

Schroedinger cat-like states by conditional measurements on a beam-splitter

A scheme for generating Schr\"{o}dinger cat-like states of a single-mode optical field by means of conditional measurement is proposed. Feeding into a beam splitter a squeezed vacuum and counting the photons in one of the output channels, the conditional states in the other output channel exhibit a number of properties that are very similar to those of superpositions of two coherent states with opposite phases. We present analytical and numerical results for the photon-number and quadrature-component distributions of the conditional states and their Wigner and Husimi functions. Further, we discuss the effect of realistic photocounting on the states.Comment: 6 figures(divided in subfigures) using a4.st