Upgrade of the Minos+ Experiment Data Acquisition for the High Energy NuMI Beam Run

The Minos+ experiment is an extension of the Minos experiment at a higher energy and more intense neutrino beam, with the data collection having begun in the fall of 2013. The neutrino beam is provided by the Neutrinos from the Main Injector (NuMI) beam-line at Fermi National Accelerator Laboratory (Fermilab). The detector apparatus consists of two main detectors, one underground at Fermilab and the other in Soudan, Minnesota with the purpose of studying neutrino oscillations at a base line of 735 km. The original data acquisition system has been running for several years collecting data from NuMI, but with the extended run from 2013, parts of the system needed to be replaced due to obsolescence, reliability problems, and data throughput limitations. Specifically, we have replaced the front-end readout controllers, event builder, and data acquisition computing and trigger processing farms with modern, modular and reliable devices with few single points of failure. The new system is based on gigabit Ethernet TCP/IP communication to implement the event building and concatenation of data from many front-end VME readout crates. The simplicity and partitionability of the new system greatly eases the debugging and diagnosing process. The new system improves throughput by about a factor of three compared to the old system, up to 800 megabits per second, and has proven robust and reliable in the current run.Comment: 3 page

Grazing Collisions of Black Holes via the Excision of Singularities

We present the first simulations of non-headon (grazing) collisions of binary black holes in which the black hole singularities have been excised from the computational domain. Initially two equal mass black holes $m$ are separated a distance $\approx10m$ and with impact parameter $\approx2m$. Initial data are based on superposed, boosted (velocity $\approx0.5c$) solutions of single black holes in Kerr-Schild coordinates. Both rotating and non-rotating black holes are considered. The excised regions containing the singularities are specified by following the dynamics of apparent horizons. Evolutions of up to $t \approx 35m$ are obtained in which two initially separate apparent horizons are present for $t\approx3.8m$. At that time a single enveloping apparent horizon forms, indicating that the holes have merged. Apparent horizon area estimates suggest gravitational radiation of about 2.6% of the total mass. The evolutions end after a moderate amount of time because of instabilities.Comment: 2 References corrected, reference to figure update

Examining leptogenesis with lepton flavor violation and the dark matter abundance

Within a supersymmetric (SUSY) type-I seesaw framework with flavor-blind universal boundary conditions, we study the consequences of requiring that the observed baryon asymmetry of the Universe be explained by either thermal or non-thermal leptogenesis. In the former case, we find that the parameter space is very constrained. In the bulk and stop-coannihilation regions of mSUGRA parameter space (that are consistent with the measured dark matter abundance), lepton flavor-violating (LFV) processes are accessible at MEG and future experiments. However, the very high reheat temperature of the Universe needed after inflation (of about 10^{12} GeV) leads to a severe gravitino problem, which disfavors either thermal leptogenesis or neutralino dark matter. Non-thermal leptogenesis in the preheating phase from SUSY flat directions relaxes the gravitino problem by lowering the required reheat temperature. The baryon asymmetry can then be explained while preserving neutralino dark matter, and for the bulk or stop-coannihilation regions LFV processes should be observed in current or future experiments.Comment: 20 pages, 5 figures, 1 tabl

Full scale pedestrian impact testing with PMHS: A pilot study

The complexity of vehicle-pedestrian collisions necessitates extensive validation of pedestrian computational models. While body components can be individually simulated, overall validation of human pedestrian models requires full-scale testing with post mortem human surrogates (PMHS). This paper presents the development of a full-scale pedestrian impact test plan and experimental design, and some results from a pilot experiment. The test plan and experimental design are developed based on the analysis of a combination of literature review, multi-body modeling, and epidemiologic studies. The proposed system has proven effective in testing an anthropometrically correct rescue dummy in multiple instances, and in one test with a PMHS.Postprint (published version

The state of the Martian climate

60°N was +2.0°C, relative to the 1981–2010 average value (Fig. 5.1). This marks a new high for the record. The average annual surface air temperature (SAT) anomaly for 2016 for land stations north of starting in 1900, and is a significant increase over the previous highest value of +1.2°C, which was observed in 2007, 2011, and 2015. Average global annual temperatures also showed record values in 2015 and 2016. Currently, the Arctic is warming at more than twice the rate of lower latitudes

Author Correction: Adaptation of Plasmodium falciparum to humans involved the loss of an ape-specific erythrocyte invasion ligand.

A Correction to this paper has been published: https://doi.org/10.1038/s41467-021-21491-y</jats:p

Adaptation of Plasmodium falciparum to humans involved the loss of an ape-specific erythrocyte invasion ligand

Abstract: Plasmodium species are frequently host-specific, but little is currently known about the molecular factors restricting host switching. This is particularly relevant for P. falciparum, the only known human-infective species of the Laverania sub-genus, all other members of which infect African apes. Here we show that all tested P. falciparum isolates contain an inactivating mutation in an erythrocyte invasion associated gene, PfEBA165, the homologues of which are intact in all ape-infective Laverania species. Recombinant EBA165 proteins only bind ape, not human, erythrocytes, and this specificity is due to differences in erythrocyte surface sialic acids. Correction of PfEBA165 inactivating mutations by genome editing yields viable parasites, but is associated with down regulation of both PfEBA165 and an adjacent invasion ligand, which suggests that PfEBA165 expression is incompatible with parasite growth in human erythrocytes. Pseudogenization of PfEBA165 may represent a key step in the emergence and evolution of P. falciparum

Matter-wave Atomic Gradiometer Interferometric Sensor (MAGIS-100)

MAGIS-100 is a next-generation quantum sensor under construction at Fermilab that aims to explore fundamental physics with atom interferometry over a 100-meter baseline. This novel detector will search for ultralight dark matter, test quantum mechanics in new regimes, and serve as a technology pathfinder for future gravitational wave detectors in a previously unexplored frequency band. It combines techniques demonstrated in state-of-the-art 10-meter-scale atom interferometers with the latest technological advances of the world's best atomic clocks. MAGIS-100 will provide a development platform for a future kilometer-scale detector that would be sufficiently sensitive to detect gravitational waves from known sources. Here we present the science case for the MAGIS concept, review the operating principles of the detector, describe the instrument design, and study the detector systematics.Comment: 65 pages, 18 figure

Gene network interconnectedness and the generalized topological overlap measure

BACKGROUND: Network methods are increasingly used to represent the interactions of genes and/or proteins. Genes or proteins that are directly linked may have a similar biological function or may be part of the same biological pathway. Since the information on the connection (adjacency) between 2 nodes may be noisy or incomplete, it can be desirable to consider alternative measures of pairwise interconnectedness. Here we study a class of measures that are proportional to the number of neighbors that a pair of nodes share in common. For example, the topological overlap measure by Ravasz et al. [1] can be interpreted as a measure of agreement between the m = 1 step neighborhoods of 2 nodes. Several studies have shown that two proteins having a higher topological overlap are more likely to belong to the same functional class than proteins having a lower topological overlap. Here we address the question whether a measure of topological overlap based on higher-order neighborhoods could give rise to a more robust and sensitive measure of interconnectedness. RESULTS: We generalize the topological overlap measure from m = 1 step neighborhoods to m ≥ 2 step neighborhoods. This allows us to define the m-th order generalized topological overlap measure (GTOM) by (i) counting the number of m-step neighbors that a pair of nodes share and (ii) normalizing it to take a value between 0 and 1. Using theoretical arguments, a yeast co-expression network application, and a fly protein network application, we illustrate the usefulness of the proposed measure for module detection and gene neighborhood analysis. CONCLUSION: Topological overlap can serve as an important filter to counter the effects of spurious or missing connections between network nodes. The m-th order topological overlap measure allows one to trade-off sensitivity versus specificity when it comes to defining pairwise interconnectedness and network modules