Compressive Sensing DNA Microarrays

Compressive sensing microarrays (CSMs) are DNA-based sensors that operate using group testing and compressive sensing (CS) principles. In contrast to conventional DNA microarrays, in which each genetic sensor is designed to respond to a single target, in a CSM, each sensor responds to a set of targets. We study the problem of designing CSMs that simultaneously account for both the constraints from CS theory and the biochemistry of probe-target DNA hybridization. An appropriate cross-hybridization model is proposed for CSMs, and several methods are developed for probe design and CS signal recovery based on the new model. Lab experiments suggest that in order to achieve accurate hybridization profiling, consensus probe sequences are required to have sequence homology of at least 80% with all targets to be detected. Furthermore, out-of-equilibrium datasets are usually as accurate as those obtained from equilibrium conditions. Consequently, one can use CSMs in applications in which only short hybridization times are allowed

Superconductivity in the η\eta-carbide-type oxides Zr4Rh2Ox

We report on the synthesis and the superconductivity of Zr$_4$Rh$_2$O$_{x}$ ($x$ = 0.4, 0.5, 0.6, 0.7, 1.0). These compounds crystallize in the $\eta$-carbide structure, which is a filled version of the complex intermetallic Ti$_2$Ni structure. We find that in the system Zr$_4$Rh$_2$O$_{x}$, already a small amount ($x$ $\geq$ 0.4) of oxygen addition stabilizes the $\eta$-carbide structure over the more common intermetallic CuAl$_2$ structure-type, in which Zr$_2$Rh crystallizes. We show that Zr$_4$Rh$_2$O$_{0.7}$ and Zr$_4$Rh$_2$O are bulk superconductors with critical temperatures of $T_c \approx$ 2.8 K and 4.7 K in the resistivity, respectively. Our analysis of the superconducting properties reveal both compounds to be strongly type-II superconductors with critical fields up to $\mu_0 H_{c1}$(0) $\approx$ 8.8 mT and $\mu_0 H_{c2}$(0) $\approx$ 6.08 T. Our results support that the $\eta$-carbides are a versatile family of compounds for the investigation of the interplay of interstitial doping on physical properties, especially for superconductivity

Shape-induced magnetic anisotropy in dilute magnetic alloys

We extend the theory of the surface-induced magnetic anisotropy to mesoscopic samples with arbitrary geometry. The shape-induced anisotropy of impurity spins in small brick-shaped grains of dilute magnetic alloys is studied in detail. The surface-induced blocking of a magnetic-impurity spin is shown to be very sensitive to geometric parameters of a grain. This implies that the apparent discrepancy between the experimental data of different groups on the size dependence of the Kondo resistivity can result from different microstructure of the used samples. In order to interpret recent experimental data on the anomalous Hall effect in thin polycrystalline Fe doped Au films, we analyse the magnetisation of impurity spins as a function of the impurity position and of the grain shape.Comment: 10 pages, 6 figures, E-mail addresses: [email protected], [email protected], [email protected]

Instability-induced formation and non-equilibrium dynamics of phase defects in polariton condensates

We study, theoretically and numerically, the onset and development of modulational instability in an incoherently pumped spatially homogeneous polariton condensate. Within the framework of mean-field theory, we identify regimes of modulational instability in two cases: 1) Strong feedback between the condensate and reservoir, which may occur in scalar condensates, and 2) Parametric scattering in the presence of polarization splitting in spinor condensates. In both cases we investigate the instability induced textures in space and time including non-equilibrium dynamics of phase dislocations and vortices. In particular we discuss the mechanism of vortex destabilization and formation of spiraling waves. We also identify the presence of topological defects, which take the form of half-vortex pairs in the spinor case, giving an "eyelet" structure in intensity and dipole type structure in the spin polarization. In the modulationally stable parameter domains, we observe formation of the phase defects in the process of condensate formation from an initially spatially incoherent low-density state. In analogy to the Kibble-Zurek type scaling for nonequilibrium phase transitions, we find that the defect density scales with the pumping rate.Comment: 13 pages, 9 figures, revised manuscript sent to Phys. Rev.

Observation of magnetization reversal in epitaxial Gd0.67Ca0.33MnO3 thin films

High quality epitaxial thin films of Gd0.67Ca0.33MnO3 have been deposited onto (100) SrTiO3 substrates by pulsed-laser deposition. Enhanced properties in comparison with bulk samples were observed. The magnetic transition temperature (Tc) of the as-grown films is much higher than the corresponding bulk values. Most interestingly, magnetization measurements performed under small applied fields, exhibit magnetization reversals below Tc, no matter whether the film is field-cooled (FC) or zero-field-cooled (ZFC). A rapid magnetization reversal occurs at 7 K when field cooled, while as for the ZFC process the magnetization decreases gradually with increasing temperatures, taking negative values above 7 K and changing to positive values again, above 83 K. In higher magnetic fields the magnetization does not change sign. The reversal mechanism is discussed in terms of a negative exchange f-d interaction and magnetic anisotropy, this later enhanced by strain effects induced by the lattice mismatch between the film and the substrate.Comment: 16 pages, 4 figure

Altruism and Voluntary Provision of Public Goods.

We study how people's predisposition towards altruism, as measured by tools developed by psychologists, affects their behaviour in a voluntary contributions public good environment. Earlier experiments provide evidence against the strong free rider hypothesis; however, contributions to the public good decrease with repetition. We investigate whether a high level of contributions can be sustained in groups of subjects who have been pre-selected on the basis of their altruistic inclinations. In the first stage of the experiment, each subject responds to a psychology questionnaire that measures various dimensions of one's personality. The subjects are then matched in groups according to their altruism scores, and engage in a voluntary contribution game. We consider whether the levels and dynamics of group contributions differ significantly between the groups with altruists and non-altruists. We find that subjects' altruism has a weak but positive effect on group behaviour in the public good game.PUBLIC OWNERSHIP ; BEHAVIOUR ; GAMES

Using surveys of Affymetrix GeneChips to study antisense expression.

We have used large surveys of Affymetrix GeneChip data in the public domain to conduct a study of antisense expression across diverse conditions. We derive correlations between groups of probes which map uniquely to the same exon in the antisense direction. When there are no probes assigned to an exon in the sense direction we find that many of the antisense groups fail to detect a coherent block of transcription. We find that only a minority of these groups contain coherent blocks of antisense expression suggesting transcription. We also derive correlations between groups of probes which map uniquely to the same exon in both sense and antisense direction. In some of these cases the locations of sense probes overlap with the antisense probes, and the sense and antisense probe intensities are correlated with each other. This configuration suggests the existence of a Natural Antisense Transcript (NAT) pair. We find the majority of such NAT pairs detected by GeneChips are formed by a transcript of an established gene and either an EST or an mRNA. In order to determine the exact antisense regulatory mechanism indicated by the correlation of sense probes with antisense probes, a further investigation is necessary for every particular case of interest. However, the analysis of microarray data has proved to be a good method to reconfirm known NATs, discover new ones, as well as to notice possible problems in the annotation of antisense transcripts

Locking classical information

It is known that the maximum classical mutual information that can be achieved between measurements on a pair of quantum systems can drastically underestimate the quantum mutual information between those systems. In this article, we quantify this distinction between classical and quantum information by demonstrating that after removing a logarithmic-sized quantum system from one half of a pair of perfectly correlated bitstrings, even the most sensitive pair of measurements might only yield outcomes essentially independent of each other. This effect is a form of information locking but the definition we use is strictly stronger than those used previously. Moreover, we find that this property is generic, in the sense that it occurs when removing a random subsystem. As such, the effect might be relevant to statistical mechanics or black hole physics. Previous work on information locking had always assumed a uniform message. In this article, we assume only a min-entropy bound on the message and also explore the effect of entanglement. We find that classical information is strongly locked almost until it can be completely decoded. As a cryptographic application of these results, we exhibit a quantum key distribution protocol that is "secure" if the eavesdropper's information about the secret key is measured using the accessible information but in which leakage of even a logarithmic number of key bits compromises the secrecy of all the others.Comment: 32 pages, 2 figure