Josephson Coupling through a Quantum Dot

We derive, via fourth order perturbation theory, an expression for the Josephson current through a gated interacting quantum dot. We analyze our expression for two different models of the superconductor-dot-superconductor (SDS) system. When the matrix elements connecting dot and leads are featureless constants, we compute the Josephson coupling J_c as a function of the gate voltage and Coulomb interaction. In the diffusive dot limit, we compute the probability distribution P(J_c) of Josephson couplings. In both cases, pi junction behavior (J_c < 0) is possible, and is not simply dependent on the parity of the dot occupancy.Comment: 9 pages; 3 encapsulated PostScript figure

A law of large numbers approximation for Markov population processes with countably many types

When modelling metapopulation dynamics, the influence of a single patch on the metapopulation depends on the number of individuals in the patch. Since the population size has no natural upper limit, this leads to systems in which there are countably infinitely many possible types of individual. Analogous considerations apply in the transmission of parasitic diseases. In this paper, we prove a law of large numbers for rather general systems of this kind, together with a rather sharp bound on the rate of convergence in an appropriately chosen weighted $\ell_1$ norm.Comment: revised version in response to referee comments, 34 page

Many Body Theory of Charge Transfer in Hyperthermal Atomic Scattering

We use the Newns-Anderson Hamiltonian to describe many-body electronic processes that occur when hyperthermal alkali atoms scatter off metallic surfaces. Following Brako and Newns, we expand the electronic many-body wavefunction in the number of particle-hole pairs (we keep terms up to and including a single particle-hole pair). We extend their earlier work by including level crossings, excited neutrals and negative ions. The full set of equations of motion are integrated numerically, without further approximations, to obtain the many-body amplitudes as a function of time. The velocity and work-function dependence of final state quantities such as the distribution of ion charges and excited atomic occupancies are compared with experiment. In particular, experiments that scatter alkali ions off clean Cu(001) surfaces in the energy range 5 to 1600 eV constrain the theory quantitatively. The neutralization probability of Na$^+$ ions shows a minimum at intermediate velocity in agreement with the theory. This behavior contrasts with that of K$^+$, which shows ... (7 figures, not included. Figure requests: [email protected])Comment: 43 pages, plain TeX, BUP-JBM-

Patient- and population-level health consequences of discontinuing antiretroviral therapy in settings with inadequate HIV treatment availability

Background In resource-limited settings, HIV budgets are flattening or decreasing. A policy of discontinuing antiretroviral therapy (ART) after HIV treatment failure was modeled to highlight trade-offs among competing policy goals of optimizing individual and population health outcomes. Methods In settings with two available ART regimens, we assessed two strategies: (1) continue ART after second-line failure (Status Quo) and (2) discontinue ART after second-line failure (Alternative). A computer model simulated outcomes for a single cohort of newly detected, HIV-infected individuals. Projections were fed into a population-level model allowing multiple cohorts to compete for ART with constraints on treatment capacity. In the Alternative strategy, discontinuation of second-line ART occurred upon detection of antiretroviral failure, specified by WHO guidelines. Those discontinuing failed ART experienced an increased risk of AIDS-related mortality compared to those continuing ART. Results At the population level, the Alternative strategy increased the mean number initiating ART annually by 1,100 individuals (+18.7%) to 6,980 compared to the Status Quo. More individuals initiating ART under the Alternative strategy increased total life-years by 15,000 (+2.8%) to 555,000, compared to the Status Quo. Although more individuals received treatment under the Alternative strategy, life expectancy for those treated decreased by 0.7 years (−8.0%) to 8.1 years compared to the Status Quo. In a cohort of treated patients only, 600 more individuals (+27.1%) died by 5 years under the Alternative strategy compared to the Status Quo. Results were sensitive to the timing of detection of ART failure, number of ART regimens, and treatment capacity. Although we believe the results robust in the short-term, this analysis reflects settings where HIV case detection occurs late in the disease course and treatment capacity and the incidence of newly detected patients are stable. Conclusions In settings with inadequate HIV treatment availability, trade-offs emerge between maximizing outcomes for individual patients already on treatment and ensuring access to treatment for all people who may benefit. While individuals may derive some benefit from ART even after virologic failure, the aggregate public health benefit is maximized by providing effective therapy to the greatest number of people. These trade-offs should be explicit and transparent in antiretroviral policy decisions

The Origins of the Circumgalactic Medium in the FIRE Simulations

We use a particle tracking analysis to study the origins of the circumgalactic medium (CGM), separating it into (1) accretion from the intergalactic medium (IGM), (2) wind from the central galaxy, and (3) gas ejected from other galaxies. Our sample consists of 21 FIRE-2 simulations, spanning the halo mass range log(Mh/Msun) ~ 10-12 , and we focus on z=0.25 and z=2. Owing to strong stellar feedback, only ~L* halos retain a baryon mass >~50% of their cosmic budget. Metals are more efficiently retained by halos, with a retention fraction >~50%. Across all masses and redshifts analyzed >~60% of the CGM mass originates as IGM accretion (some of which is associated with infalling halos). Overall, the second most important contribution is wind from the central galaxy, though gas ejected or stripped from satellites can contribute a comparable mass in ~L* halos. Gas can persist in the CGM for billions of years, resulting in well-mixed halo gas. Sight lines through the CGM are therefore likely to intersect gas of multiple origins. For low-redshift ~L* halos, cool gas (T<10^4.7 K) is distributed on average preferentially along the galaxy plane, however with strong halo-to-halo variability. The metallicity of IGM accretion is systematically lower than the metallicity of winds (typically by >~1 dex), although CGM and IGM metallicities depend significantly on the treatment of subgrid metal diffusion. Our results highlight the multiple physical mechanisms that contribute to the CGM and will inform observational efforts to develop a cohesive picture.Comment: 23 pages, 22 figures. Minor revisions from previous version. Online interactive visualizations available at zhafen.github.io/CGM-origins and zhafen.github.io/CGM-origins-pathline

Apolipoprotein L1 gene variants associate with prevalent kidney but not prevalent cardiovascular disease in the Systolic Blood Pressure Intervention Trial.

Apolipoprotein L1 gene (APOL1) G1 and G2 coding variants are strongly associated with chronic kidney disease (CKD) in African Americans (AAs). Here APOL1 association was tested with baseline estimated glomerular filtration rate (eGFR), urine albumin:creatinine ratio (UACR), and prevalent cardiovascular disease (CVD) in 2571 AAs from the Systolic Blood Pressure Intervention Trial (SPRINT), a trial assessing effects of systolic blood pressure reduction on renal and CVD outcomes. Logistic regression models that adjusted for potentially important confounders tested for association between APOL1 risk variants and baseline clinical CVD (myocardial infarction, coronary, or carotid artery revascularization) and CKD (eGFR under 60 ml/min per 1.73 m(2) and/or UACR over 30 mg/g). AA SPRINT participants were 45.3% female with a mean (median) age of 64.3 (63) years, mean arterial pressure 100.7 (100) mm Hg, eGFR 76.3 (77.1) ml/min per 1.73 m(2), and UACR 49.9 (9.2) mg/g, and 8.2% had clinical CVD. APOL1 (recessive inheritance) was positively associated with CKD (odds ratio 1.37, 95% confidence interval 1.08-1.73) and log UACR estimated slope (β) 0.33) and negatively associated with eGFR (β -3.58), all significant. APOL1 risk variants were not significantly associated with prevalent CVD (1.02, 0.82-1.27). Thus, SPRINT data show that APOL1 risk variants are associated with mild CKD but not with prevalent CVD in AAs with a UACR under 1000 mg/g

Exact solution of a two-type branching process: Clone size distribution in cell division kinetics

We study a two-type branching process which provides excellent description of experimental data on cell dynamics in skin tissue (Clayton et al., 2007). The model involves only a single type of progenitor cell, and does not require support from a self-renewed population of stem cells. The progenitor cells divide and may differentiate into post-mitotic cells. We derive an exact solution of this model in terms of generating functions for the total number of cells, and for the number of cells of different types. We also deduce large time asymptotic behaviors drawing on our exact results, and on an independent diffusion approximation.Comment: 16 page