Modeling hydrodynamic self-propulsion with Stokesian Dynamics. Or teaching Stokesian Dynamics to swim

We develop a general framework for modeling the hydrodynamic self-propulsion (i.e., swimming) of bodies (e.g., microorganisms) at low Reynolds number via Stokesian Dynamics simulations. The swimming body is composed of many spherical particles constrained to form an assembly that deforms via relative motion of its constituent particles. The resistance tensor describing the hydrodynamic interactions among the individual particles maps directly onto that for the assembly. Specifying a particular swimming gait and imposing the condition that the swimming body is force- and torque-free determine the propulsive speed. The body’s translational and rotational velocities computed via this methodology are identical in form to that from the classical theory for the swimming of arbitrary bodies at low Reynolds number. We illustrate the generality of the method through simulations of a wide array of swimming bodies: pushers and pullers, spinners, the Taylor=Purcell swimming toroid, Taylor’s helical swimmer, Purcell’s three-link swimmer, and an amoeba-like body undergoing large-scale deformation. An open source code is a part of the supplementary material and can be used to simulate the swimming of a body with arbitrary geometry and swimming gait

A model of CP Violation from Extra Dimension

We construct a realistic model of CP violation in which CP is broken in the process of dimensional reduction and orbifold compactification from a five dimensional theories with $SU(3)\times SU(3) \times SU(3)$ gauge symmetry. CP violation is a result of the Hosotani type gauge configuration in the higher dimension.Comment: 5 page

Prolonged Excretion of Poliovirus among Individuals with Primary Immunodeficiency Disorder: An Analysis of the World Health Organization Registry.

Individuals with primary immunodeficiency disorder may excrete poliovirus for extended periods and will constitute the only remaining reservoir of virus after eradication and withdrawal of oral poliovirus vaccine. Here, we analyzed the epidemiology of prolonged and chronic immunodeficiency-related vaccine-derived poliovirus cases in a registry maintained by the World Health Organization, to identify risk factors and determine the length of excretion. Between 1962 and 2016, there were 101 cases, with 94/101 (93%) prolonged excretors and 7/101 (7%) chronic excretors. We documented an increase in incidence in recent decades, with a shift toward middle-income countries, and a predominance of poliovirus type 2 in 73/101 (72%) cases. The median length of excretion was 1.3 years (95% confidence interval: 1.0, 1.4) and 90% of individuals stopped excreting after 3.7 years. Common variable immunodeficiency syndrome and residence in high-income countries were risk factors for long-term excretion. The changing epidemiology of cases, manifested by the greater incidence in recent decades and a shift to from high- to middle-income countries, highlights the expanding risk of poliovirus transmission after oral poliovirus vaccine cessation. To better quantify and reduce this risk, more sensitive surveillance and effective antiviral therapies are needed

Report of the Beyond the MSSM Subgroup for the Tevatron Run II SUSY/Higgs Workshop

There are many low-energy models of supersymmetry breaking parameters which are motivated by theoretical and experimental considerations. Here, we discuss some of the lesser-known theories of low-energy supersymmetry, and outline their phenomenological consequences. In some cases, these theories have more gauge symmetry or particle content than the Minimal Supersymmetric Standard Model. In other cases, the parameters of the Lagrangian are unusual compared to commonly accepted norms (e.g., Wino LSP, heavy gluino LSP, light gluino, etc.). The phenomenology of supersymmetry varies greatly between the different models. Correspondingly, particular aspects of the detectors assume greater or lesser importance. Detection of supersymmetry and the determination of all parameters may well depend upon having the widest possible view of supersymmetry phenomenology.Comment: 78 pages, 49 figures, to appear in the Proceedings of the Tevatron Run II SUSY/Higgs Workshop. Editor: J. F. Gunion; BTMSSM Convenors: M. Chertok, H. Dreiner, G. Landsberg, J. F. Gunion, J.D. Well

The hidden sterile neutrino and the (2+2) sum rule

We discuss oscillations of atmospheric and solar neutrinos into sterile neutrinos in the 2+2 scheme. A zeroth order sum rule requires equal probabilities for oscillation into nu_s and nu_tau in the solar+atmospheric data sample. Data does not favor this claim. Here we use scatter plots to assess corrections of the zeroth order sum rule when (i) the 4 x 4 neutrino mixing matrix assumes its full range of allowed values, and (ii) matter effects are included. We also introduce a related "product rule". We find that the sum rule is significantly relaxed, due to both the inclusion of the small mixing angles (which provide a short-baseline contribution) and to matter effects. The product rule is also dramatically altered. The observed relaxation of the sum rule weakens the case against the 2+2 model and the sterile neutrino. To invalidate the 2+2 model, a global fit to data with the small mixing angles included seems to be required.Comment: 43 pages, 11 figures (same as v2, accidental replacement

A Large Solid Angle Study of Pion Absorption on He3

Measurements have been made of pi+ absorption on He3 at T_pi+ = 118, 162, and 239 MeV using the Large Acceptance Detector System (LADS). The nearly 4pi solid angle coverage of this detector minimizes uncertainties associated with extrapolations over unmeasured regions of phase space. The total absorption cross section is reported. In addition, the total cross section is divided into components in which only two or all three nucleons play a significant role in the process. These are the first direct measurements of the total and three nucleon absorption cross sections.Comment: 8 pages, LaTeX. 3 figures, anonymous ftp MITLNS.MIT.EDU, cd LADS. Submitted to PRL. PSI-PR-94-11 (Paul Scherrer Institute) and LNS 94-56 (MIT Lab. for Nucl. Sci.

Matter Effects on Neutrino Oscillations in Long Baseline Experiments

We calculate matter effects on neutrino oscillations relevant for long baseline experiments. In particular, we compare the results obtained with constant density along the neutrino path versus results obtained by incorporating the actual density profiles in the Earth. We study the dependence of the oscillation signal on both $E/\Delta m^2_{atm}$ and on the angles in the leptonic mixing matrix. We also comment on the influence of $\Delta m^2_{sol}$ on the oscillations. The results show quantitatively how, as a function of these input parameters, matter effects can cause significant (25 %) changes in the oscillation probabilities. An important conclusion is that matter effects can be useful in amplifying certain neutrino oscillation signals and helping one to obtain measurements of mixing parameters and the magnitude and sign of $\Delta m^2_{atm}$.Comment: 26 pages, Latex, 17 postscript figures, published version, some references adde

A high-resolution map of human evolutionary constraint using 29 mammals.

The comparison of related genomes has emerged as a powerful lens for genome interpretation. Here we report the sequencing and comparative analysis of 29 eutherian genomes. We confirm that at least 5.5% of the human genome has undergone purifying selection, and locate constrained elements covering ∼4.2% of the genome. We use evolutionary signatures and comparisons with experimental data sets to suggest candidate functions for ∼60% of constrained bases. These elements reveal a small number of new coding exons, candidate stop codon readthrough events and over 10,000 regions of overlapping synonymous constraint within protein-coding exons. We find 220 candidate RNA structural families, and nearly a million elements overlapping potential promoter, enhancer and insulator regions. We report specific amino acid residues that have undergone positive selection, 280,000 non-coding elements exapted from mobile elements and more than 1,000 primate- and human-accelerated elements. Overlap with disease-associated variants indicates that our findings will be relevant for studies of human biology, health and disease

Status of four-neutrino mass schemes: a global and unified approach to current neutrino oscillation data

We present a unified global analysis of neutrino oscillation data within the framework of the four-neutrino mass schemes (3+1) and (2+2). We include all data from solar and atmospheric neutrino experiments, as well as information from short-baseline experiments including LSND. If we combine only solar and atmospheric neutrino data, (3+1) schemes are clearly preferred, whereas short-baseline data in combination with atmospheric data prefers (2+2) models. When combining all data in a global analysis the (3+1) mass scheme gives a slightly better fit than the (2+2) case, though all four-neutrino schemes are presently acceptable. The LSND result disfavors the three-active neutrino scenario with only $\Delta m^2_{sol}$ and $\Delta m^2_{atm}$ at 99.9% CL with respect to the four-neutrino best fit model. We perform a detailed analysis of the goodness of fit to identify which sub-set of the data is in disagreement with the best fit solution in a given mass scheme.Comment: 32 pages, 8 Figures included, REVTeX4.Improved discussion in sec. XI, references added, version accepted by Phys. Rev.