Quantifying structural damage from self-irradiation in a plutonium superconductor

The 18.5 K superconductor PuCoGa5 has many unusual properties, including those due to damage induced by self-irradiation. The superconducting transition temperature decreases sharply with time, suggesting a radiation-induced Frenkel defect concentration much larger than predicted by current radiation damage theories. Extended x-ray absorption fine-structure measurements demonstrate that while the local crystal structure in fresh material is well ordered, aged material is disordered much more strongly than expected from simple defects, consistent with strong disorder throughout the damage cascade region. These data highlight the potential impact of local lattice distortions relative to defects on the properties of irradiated materials and underscore the need for more atomic-resolution structural comparisons between radiation damage experiments and theory.Comment: 7 pages, 5 figures, to be published in PR

NeuroPred: a tool to predict cleavage sites in neuropeptide precursors and provide the masses of the resulting peptides

NeuroPred is a web application designed to predict cleavage sites at basic amino acid locations in neuropeptide precursor sequences. The user can study one amino acid sequence or multiple sequences simultaneously, selecting from several prediction models and optional, user-defined functions. Logistic regression models are trained on experimentally verified or published cleavage data from mollusks, mammals and insects, and amino acid motifs reported to be associated with cleavage. Confidence interval limits of the probabilities of cleavage indicate the precision of the predictions; these predictions are transformed into cleavage or non-cleavage events according to user-defined thresholds. In addition to the precursor sequence, NeuroPred accepts user-specified cleavage information, providing model accuracy statistics based on observed and predicted cleavages. Neuropred also computes the mass of the predicted peptides, including user-selectable post-translational modifications. The resulting mass list aids the discovery and confirmation of new neuropeptides using mass spectrometry techniques. The NeuroPred application, manual, reference manuscripts and training sequences are available at

Weak Localization Effect in Superconductors by Radiation Damage

Large reductions of the superconducting transition temperature $T_{c}$ and the accompanying loss of the thermal electrical resistivity (electron-phonon interaction) due to radiation damage have been observed for several A15 compounds, Chevrel phase and Ternary superconductors, and $\rm{NbSe_{2}}$ in the high fluence regime. We examine these behaviors based on the recent theory of weak localization effect in superconductors. We find a good fitting to the experimental data. In particular, weak localization correction to the phonon-mediated interaction is derived from the density correlation function. It is shown that weak localization has a strong influence on both the phonon-mediated interaction and the electron-phonon interaction, which leads to the universal correlation of $T_{c}$ and resistance ratio.Comment: 16 pages plus 3 figures, revtex, 76 references, For more information, Plesse see http://www.fen.bilkent.edu.tr/~yjki

Noncommutative Geometry of Finite Groups

A finite set can be supplied with a group structure which can then be used to select (classes of) differential calculi on it via the notions of left-, right- and bicovariance. A corresponding framework has been developed by Woronowicz, more generally for Hopf algebras including quantum groups. A differential calculus is regarded as the most basic structure needed for the introduction of further geometric notions like linear connections and, moreover, for the formulation of field theories and dynamics on finite sets. Associated with each bicovariant first order differential calculus on a finite group is a braid operator which plays an important role for the construction of distinguished geometric structures. For a covariant calculus, there are notions of invariance for linear connections and tensors. All these concepts are explored for finite groups and illustrated with examples. Some results are formulated more generally for arbitrary associative (Hopf) algebras. In particular, the problem of extension of a connection on a bimodule (over an associative algebra) to tensor products is investigated, leading to the class of `extensible connections'. It is shown that invariance properties of an extensible connection on a bimodule over a Hopf algebra are carried over to the extension. Furthermore, an invariance property of a connection is also shared by a `dual connection' which exists on the dual bimodule (as defined in this work).Comment: 34 pages, Late

Hopf Categories

We introduce Hopf categories enriched over braided monoidal categories. The notion is linked to several recently developed notions in Hopf algebra theory, such as Hopf group (co)algebras, weak Hopf algebras and duoidal categories. We generalize the fundamental theorem for Hopf modules and some of its applications to Hopf categories.Comment: 47 pages; final version to appear in Algebras and Representation Theor

Noncommutative Symmetries and Gravity

Spacetime geometry is twisted (deformed) into noncommutative spacetime geometry, where functions and tensors are now star-multiplied. Consistently, spacetime diffeomorhisms are twisted into noncommutative diffeomorphisms. Their deformed Lie algebra structure and that of infinitesimal Poincare' transformations is defined and explicitly constructed. This allows to construct a noncommutative theory of gravity.Comment: 26 pages. Lectures given at the workshop `Noncommutative Geometry in Field and String Theories', Corfu Summer Institute on EPP, September 2005, Corfu, Greece. Version 2: Marie Curie European Reintegration Grant MERG-CT-2004-006374 acknowledge

Strong Connections on Quantum Principal Bundles

A gauge invariant notion of a strong connection is presented and characterized. It is then used to justify the way in which a global curvature form is defined. Strong connections are interpreted as those that are induced from the base space of a quantum bundle. Examples of both strong and non-strong connections are provided. In particular, such connections are constructed on a quantum deformation of the fibration $S^2 -> RP^2$. A certain class of strong $U_q(2)$-connections on a trivial quantum principal bundle is shown to be equivalent to the class of connections on a free module that are compatible with the q-dependent hermitian metric. A particular form of the Yang-Mills action on a trivial U\sb q(2)-bundle is investigated. It is proved to coincide with the Yang-Mills action constructed by A.Connes and M.Rieffel. Furthermore, it is shown that the moduli space of critical points of this action functional is independent of q.Comment: AMS-LaTeX, 40 pages, major revision including examples of connections over a quantum real projective spac

The Serre spectral sequence of a noncommutative fibration for de Rham cohomology

For differential calculi on noncommutative algebras, we construct a twisted de Rham cohomology using flat connections on modules. This has properties similar, in some respects, to sheaf cohomology on topological spaces. We also discuss generalised mapping properties of these theories, and relations of these properties to corings. Using this, we give conditions for the Serre spectral sequence to hold for a noncommutative fibration. This might be better read as giving the definition of a fibration in noncommutative differential geometry. We also study the multiplicative structure of such spectral sequences. Finally we show that some noncommutative homogeneous spaces satisfy the conditions to be such a fibration, and in the process clarify the differential structure on these homogeneous spaces. We also give two explicit examples of differential fibrations: these are built on the quantum Hopf fibration with two different differential structures.Comment: LaTeX, 33 page