Field simulation of axisymmetric plasma screw pinches by alternating-direction-implicit methods

An axisymmetric plasma screw pinch is an axisymmetric column of ionized gaseous plasma radially confined by forces from axial and azimuthal currents driven in the plasma and its surroundings. This dissertation is a contribution to detailed, high resolution computer simulation of dynamic plasma screw pinches in 2-d {ital rz}-coordinates. The simulation algorithm combines electron fluid and particle-in-cell (PIC) ion models to represent the plasma in a hybrid fashion. The plasma is assumed to be quasineutral; along with the Darwin approximation to the Maxwell equations, this implies application of Ampere`s law without displacement current. Electron inertia is assumed negligible so that advective terms in the electron momentum equation are ignored. Electrons and ions have separate scalar temperatures, and a scalar plasma electrical resistivity is assumed. Altemating-direction-implicit (ADI) methods are used to advance the electron fluid drift velocity and the magnetic fields in the simulation. The ADI methods allow time steps larger than allowed by explicit methods. Spatial regions where vacuum field equations have validity are determined by a cutoff density that invokes the quasineutral vacuum Maxwell equations (Darwin approximation). In this dissertation, the algorithm was first checked against ideal MM stability theory, and agreement was nicely demonstrated. However, such agreement is not a new contribution to the research field. Contributions to the research field include new treatments of the fields in vacuum regions of the pinch simulation. The new treatments predict a level of magnetohydrodynamic turbulence near the bulk plasma surface that is higher than predicted by other methods

Field simulation of axisymmetric plasma screw pinches by alternating-direction-implicit methods

An axisymmetric plasma screw pinch is an axisymmetric column of ionized gaseous plasma radially confined by forces from axial and azimuthal currents driven in the plasma and its surroundings. This dissertation is a contribution to detailed, high resolution computer simulation of dynamic plasma screw pinches in 2-d {ital rz}-coordinates. The simulation algorithm combines electron fluid and particle-in-cell (PIC) ion models to represent the plasma in a hybrid fashion. The plasma is assumed to be quasineutral; along with the Darwin approximation to the Maxwell equations, this implies application of Ampere`s law without displacement current. Electron inertia is assumed negligible so that advective terms in the electron momentum equation are ignored. Electrons and ions have separate scalar temperatures, and a scalar plasma electrical resistivity is assumed. Altemating-direction-implicit (ADI) methods are used to advance the electron fluid drift velocity and the magnetic fields in the simulation. The ADI methods allow time steps larger than allowed by explicit methods. Spatial regions where vacuum field equations have validity are determined by a cutoff density that invokes the quasineutral vacuum Maxwell equations (Darwin approximation). In this dissertation, the algorithm was first checked against ideal MM stability theory, and agreement was nicely demonstrated. However, such agreement is not a new contribution to the research field. Contributions to the research field include new treatments of the fields in vacuum regions of the pinch simulation. The new treatments predict a level of magnetohydrodynamic turbulence near the bulk plasma surface that is higher than predicted by other methods

DMRforPairs: Identifying Differentially Methylated Regions between unique samples using array based methylation profiles

Background: Array based methylation profiling is a cost-effective solution to study the association between genome methylation and human disease & development. Available tools to analyze the Illumina Infinium HumanMethylation450 BeadChip focus on comparing methylation levels per locus. Other tools combine multiple probes into a range, identifying differential methylated regions (DMRs). These tools all require groups of samples to compare. However, comparison of unique, individual samples is essential in situations where larger sample sizes are not possible.Results: DMRforPairs was designed to compare regional methylation status between unique samples. It identifies probe dense genomic regions and quantifies/tests their (difference in) methylation level between the samples. As a proof of concept, DMRforPairs is applied to public data from four human cell lines: two lymphoblastoid cell lines from healthy individuals and the cancer cell lines A431 and MCF7 (including 2 technical replicates each). DMRforPairs identified an increasing number of DMRs related to the sample phenotype when biological similarity of the samples decreased. DMRs identified by DMRforPairs were related to the biological origin of the cell lines.Conclusion: To our knowledge, DMRforPairs is the first tool to identify and visualize relevant and significant differentially methylated regions between unique samples

M2-Branes and Background Fields

We discuss the coupling of multiple M2-branes to the background 3-form and 6-form gauge fields of eleven-dimensional supergravity, including the coupling of the Fermions. In particular we show in detail how a natural generalization of the Myers flux-terms, along with the resulting curvature of the background metric, leads to mass terms in the effective field theory.Comment: 19 page

M2-branes on M-folds

We argue that the moduli space for the Bagger-Lambert A_4 theory at level k is (R^8 \times R^8)/D_{2k}, where D_{2k} is the dihedral group of order 4k. We conjecture that the theory describes two M2-branes on a Z_{2k} ``M-fold'', in which a geometrical action of Z_{2k} is combined with an action on the branes. For k=1, this arises as the strong coupling limit of two D2-branes on an O2^- orientifold, whose worldvolume theory is the maximally supersymmetric SO(4) gauge theory. Finally, in an appropriate large-k limit we show that one recovers compactified M-theory and the M2-branes reduce to D2-branes.Comment: 16 pages, LaTeX, v2: typos corrected, included appendices on Chern-Simons level quantization and monopole charge quantizatio

Constraining Maximally Supersymmetric Membrane Actions

We study the recent construction of maximally supersymmetric field theory Lagrangians in three spacetime dimensions that are based on algebras with a triple product. Assuming that the algebra has a positive definite metric compatible with the triple product, we prove that the only non-trivial examples are either the well known case based on a four dimensional algebra or direct sums thereof.Comment: 11 pages, very minor changes. Reference added. Version to be published in JHE

Weak Charge Quantization on Superconducting Islands

We consider the Coulomb blockade on a superconductive quantum dot strongly coupled to a lead through a tunnelling barrier and/or normal diffusive metal. Andreev transport of the correlated pairs leads to quantum fluctuations of the charge on the dot. These fluctuations result in exponential renormalization of the effective charging energy. We employ two complimentary ways to approach the problem, leading to the coinciding results: the instanton and the functional RG treatment of the non-linear sigma model. We also derive the charging energy renormalization in terms of arbitrary transmission matrix of the multi-channel interface.Comment: 21 pages, 4 eps figures, RevTe

Correlations of structural, magnetic, and dielectric properties of undoped and doped CaCu3Ti4O12

The present work reports synthesis, as well as a detailed and careful characterization of structural, magnetic, and dielectric properties of differently tempered undoped and doped CaCu3Ti4O12 (CCTO) ceramics. For this purpose, neutron and x-ray powder diffraction, SQUID measurements, and dielectric spectroscopy have been performed. Mn-, Fe-, and Ni-doped CCTO ceramics were investigated in great detail to document the influence of low-level doping with 3d metals on the antiferromagnetic structure and dielectric properties. In the light of possible magnetoelectric coupling in these doped ceramics, the dielectric measurements were also carried out in external magnetic fields up to 7 T, showing a minor but significant dependence of the dielectric constant on the applied magnetic field. Undoped CCTO is well-known for its colossal dielectric constant in a broad frequency and temperature range. With the present extended characterization of doped as well as undoped CCTO, we want to address the question why doping with only 1% Mn or 0.5% Fe decreases the room-temperature dielectric constant of CCTO by a factor of ~100 with a concomitant reduction of the conductivity, whereas 0.5% Ni doping changes the dielectric properties only slightly. In addition, diffraction experiments and magnetic investigations were undertaken to check for possible correlations of the magnitude of the colossal dielectric constants with structural details or with magnetic properties like the magnetic ordering, the Curie-Weiss temperatures, or the paramagnetic moment. It is revealed, that while the magnetic ordering temperature and the effective moment of all investigated CCTO ceramics are rather similar, there is a dramatic influence of doping and tempering time on the Curie-Weiss constant.Comment: 10 pages, 11 figure

Comparing genome-scale DNA methylation and CNV marks between adult human cultured ITGA6+ testicular cells and seminomas to assess in vitro genomic stability

Autologous transplantation of spermatogonial stem cells is a promising new avenue to restore fertility in infertile recipients. Expansion of the initial spermatogonial stem cell pool through cell culturing is a necessary step to obtain enough cells for effective repopulation of the testis after transplantation. Since in vitro propagation can lead to (epi-)genetic mutations and possibly malignant transformation of the starting cell population, we set out to investigate genome-wide DNA methylation status in uncultured and cultured primary testicular ITGA6+ sorted cells and compare them with germ cell tumor samples of the seminoma subtype. Seminomas displayed a severely global hypomethylated profile, including loss of genomic imprinting, which we did not detect in cultured primary testicular ITGA6+ cells. Differential methylation analysis revealed altered regulation of gamete formation and meiotic processes in cultured primary testicular ITGA6+ cells but not in seminomas. The pivotal POU5F1 marker was hypomethylated in seminomas but not in uncultured or cultured primary testicular ITGA6+ cells, which is reflected in the POU5F1 mRNA expression levels. Lastly, seminomas displayed a number of characteristic copy number variations that were not detectable in primary testicular ITGA6+ cells, either before or after culture. Together, the data show a distinct DNA methylation patterns in cultured primary testicular ITGA6+ cells that does not resemble the pattern found in seminomas, but also highlight the need for more sensitive methods to fully exclude the presence of malignant cells after culture and to further study the epigenetic events that take place during in vitro culture

Chemostratigraphy of Neoproterozoic carbonates: implications for 'blind dating'

The delta C-13(carb) and Sr-87/Sr-86 secular variations in Neoproteozoic seawater have been used for the purpose of 'isotope stratigraphy' but there are a number of problems that can preclude its routine use. In particular, it cannot be used with confidence for 'blind dating'. The compilation of isotopic data on carbonate rocks reveals a high level of inconsistency between various carbon isotope age curves constructed for Neoproteozoic seawater, caused by a relatively high frequency of both global and local delta C-13(carb) fluctuations combined with few reliable age determinations. Further complication is caused by the unresolved problem as to whether two or four glaciations, and associated negative delta C-13(carb) excursions, can be reliably documented. Carbon isotope stratigraphy cannot be used alone for geological correlation and 'blind dating'. Strontium isotope stratigraphy is a more reliable and precise tool for stratigraphic correlations and indirect age determinations. Combining strontium and carbon isotope stratigraphy, several discrete ages within the 590-544 Myr interval, and two age-groups at 660-610 and 740-690 Myr can be resolved