Dichloro(diphenylarsino)ruthenium(III) & Its Reactions with Some Nitrogen Donors

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Fock space exploration by angle resolved transmission through quantum diffraction grating of cold atoms in an optical lattice

Light transmission or diffraction from different quantum phases of cold atoms in an optical lattice has recently come up as a useful tool to probe such ultra cold atomic systems. The periodic nature of the optical lattice potential closely resembles the structure of a diffraction grating in real space, but loaded with a strongly correlated quantum many body state which interacts with the incident electromagnetic wave, a feature that controls the nature of the light transmission or dispersion through such quantum medium. In this paper we show that as one varies the relative angle between the cavity mode and the optical lattice, the peak of the transmission spectrum through such cavity also changes reflecting the statistical distribution of the atoms in the illuminated sites. Consequently the angle resolved transmission spectrum of such quantum diffraction grating can provide a plethora of information about the Fock space structure of the many body quantum state of ultra cold atoms in such an optical cavity that can be explored in current state of the art experiments.Comment: 40 double spaced, single column pages, 40 .eps figures, accepted for publication in Physical Review

Level Density of a Bose Gas and Extreme Value Statistics

We establish a connection between the level density of a gas of non-interacting bosons and the theory of extreme value statistics. Depending on the exponent that characterizes the growth of the underlying single-particle spectrum, we show that at a given excitation energy the limiting distribution function for the number of excited particles follows the three universal distribution laws of extreme value statistics, namely Gumbel, Weibull and Fr\'echet. Implications of this result, as well as general properties of the level density at different energies, are discussed.Comment: 4 pages, no figure

Application of dissociation curve analysis to radiation hybrid panel marker scoring: generation of a map of river buffalo (B. bubalis) chromosome 20

<p>Abstract</p> <p>Background</p> <p>Fluorescence of dyes bound to double-stranded PCR products has been utilized extensively in various real-time quantitative PCR applications, including post-amplification dissociation curve analysis, or differentiation of amplicon length or sequence composition. Despite the current era of whole-genome sequencing, mapping tools such as radiation hybrid DNA panels remain useful aids for sequence assembly, focused resequencing efforts, and for building physical maps of species that have not yet been sequenced. For placement of specific, individual genes or markers on a map, low-throughput methods remain commonplace. Typically, PCR amplification of DNA from each panel cell line is followed by gel electrophoresis and scoring of each clone for the presence or absence of PCR product. To improve sensitivity and efficiency of radiation hybrid panel analysis in comparison to gel-based methods, we adapted fluorescence-based real-time PCR and dissociation curve analysis for use as a novel scoring method.</p> <p>Results</p> <p>As proof of principle for this dissociation curve method, we generated new maps of river buffalo (<it>Bubalus bubalis</it>) chromosome 20 by both dissociation curve analysis and conventional marker scoring. We also obtained sequence data to augment dissociation curve results. Few genes have been previously mapped to buffalo chromosome 20, and sequence detail is limited, so 65 markers were screened from the orthologous chromosome of domestic cattle. Thirty bovine markers (46%) were suitable as cross-species markers for dissociation curve analysis in the buffalo radiation hybrid panel under a standard protocol, compared to 25 markers suitable for conventional typing. Computational analysis placed 27 markers on a chromosome map generated by the new method, while the gel-based approach produced only 20 mapped markers. Among 19 markers common to both maps, the marker order on the map was maintained perfectly.</p> <p>Conclusion</p> <p>Dissociation curve analysis is reliable and efficient for radiation hybrid panel scoring, and is more sensitive and robust than conventional gel-based typing methods. Several markers could be scored only by the new method, and ambiguous scores were reduced. PCR-based dissociation curve analysis decreases both time and resources needed for construction of radiation hybrid panel marker maps and represents a significant improvement over gel-based methods in any species.</p

Resistivity due to a Domain Wall in Ferromagnetic Metal

The resistivity due to a domain wall in ferromagnetic metallic wire is calculated based on the linear response theory. The interaction between conduction electrons and the wall is expressed in terms of a classical gauge field which is introduced by the local gauge transformation in the electron spin space. It is shown that the wall contributes to the decoherence of electrons and that this quantum correction can dominate over the Boltzmann resisitivity, leading to a decrease of resisitivity by nucleation of a wall. The conductance fluctuation due to the motion of the wall is also investigated. The results are compared with recent experiments.Comment: 9 pages, 3 figure

Interaction-driven giant thermopower in magic-angle twisted bilayer graphene

Magic-angle twisted bilayer graphene has proved to be a fascinating platform to realize and study emergent quantum phases arising from the strong correlations in its flat bands. Thermal transport phenomena, such as thermopower, are sensitive to the particle-hole asymmetry, making them a crucial tool to probe the underlying electronic structure of this material. Here we have carried out thermopower measurements of magic-angle twisted bilayer graphene as a function of carrier density, temperature and magnetic field. We report the observation of an unusually large thermopower reaching a value of the order of 100 mu V K-1 at a low temperature of 1 K. The thermopower exhibits peak-like features that violate the Mott formula in close correspondence to the resistance peaks appearing around the integer filling of the moire bands, including the Dirac point. We show that the large thermopower peaks and their associated behaviour arise from the emergent highly particle-hole-asymmetric electronic structure, due to the sequential filling of the moire flat bands and the associated recovery of Dirac-like physics. Furthermore, the thermopower shows an anomalous peak around the superconducting transition, which points towards the possible role of superconducting fluctuations in magic-angle twisted bilayer graphene. Thermal transport measurements provide a complementary view of the electronic structure of a material to electronic transport. This technique is applied to twisted bilayer graphene, and highlights the particle-hole asymmetry of its band structure

A Perspective on Regularization and Curvature

A global connection on the Connes Marcolli renormalization bundle relates $\beta$-functions of a class of regularization schemes by gauge transformations, as well as local solutions to $\beta$-functions over curved space-time.Comment: As publishe

Single haplotype assembly of the human genome from a hydatidiform mole

A complete reference assembly is essential for accurately interpreting individual genomes and associating variation with phenotypes. While the current human reference genome sequence is of very high quality, gaps and misassemblies remain due to biological and technical complexities. Large repetitive sequences and complex allelic diversity are the two main drivers of assembly error. Although increasing the length of sequence reads and library fragments can improve assembly, even the longest available reads do not resolve all regions. In order to overcome the issue of allelic diversity, we used genomic DNA from an essentially haploid hydatidiform mole, CHM1. We utilized several resources from this DNA including a set of end-sequenced and indexed BAC clones and 100× Illumina whole-genome shotgun (WGS) sequence coverage. We used the WGS sequence and the GRCh37 reference assembly to create an assembly of the CHM1 genome. We subsequently incorporated 382 finished BAC clone sequences to generate a draft assembly, CHM1_1.1 (NCBI AssemblyDB GCA_000306695.2). Analysis of gene, repetitive element, and segmental duplication content show this assembly to be of excellent quality and contiguity. However, comparison to assembly-independent resources, such as BAC clone end sequences and PacBio long reads, indicate misassembled regions. Most of these regions are enriched for structural variation and segmental duplication, and can be resolved in the future. This publicly available assembly will be integrated into the Genome Reference Consortium curation framework for further improvement, with the ultimate goal being a completely finished gap-free assembly

PedHunter 2.0 and its usage to characterize the founder structure of the Old Order Amish of Lancaster County

<p>Abstract</p> <p>Background</p> <p>Because they are a closed founder population, the Old Order Amish (OOA) of Lancaster County have been the subject of many medical genetics studies. We constructed four versions of Anabaptist Genealogy Database (AGDB) using three sources of genealogies and multiple updates. In addition, we developed PedHunter, a suite of query software that can solve pedigree-related problems automatically and systematically.</p> <p>Methods</p> <p>We report on how we have used new features in PedHunter to quantify the number and expected genetic contribution of founders to the OOA. The queries and utility of PedHunter programs are illustrated by examples using AGDB in this paper. For example, we calculated the number of founders expected to be contributing genetic material to the present-day living OOA and estimated the mean relative founder representation for each founder. New features in PedHunter also include pedigree trimming and pedigree renumbering, which should prove useful for studying large pedigrees.</p> <p>Results</p> <p>With PedHunter version 2.0 querying AGDB version 4.0, we identified 34,160 presumed living OOA individuals and connected them into a 14-generation pedigree descending from 554 founders (332 females and 222 males) after trimming. From the analysis of cumulative mean relative founder representation, 128 founders (78 females and 50 males) accounted for over 95% of the mean relative founder contribution among living OOA descendants.</p> <p>Discussion/Conclusions</p> <p>The OOA are a closed founder population in which a modest number of founders account for the genetic variation present in the current OOA population. Improvements to the PedHunter software will be useful in future studies of both the OOA and other populations with large and computerized genealogies.</p