Critical slowing down and hyperuniformity on approach to jamming

Hyperuniformity characterizes a state of matter that is poised at a critical point at which density or volume-fraction fluctuations are anomalously suppressed at infinite wavelengths. Recently, much attention has been given to the link between strict jamming and hyperuniformity in frictionless hard-particle packings. Doing so requires one to study very large packings, which can be difficult to jam properly. We modify the rigorous linear programming method of Donev et al. [J. Comp. Phys. 197, 139 (2004)] in order to test for jamming in putatively jammed packings of hard-disks in two dimensions. We find that various standard packing protocols struggle to reliably create packings that are jammed for even modest system sizes; importantly, these packings appear to be jammed by conventional tests. We present evidence that suggests that deviations from hyperuniformity in putative maximally random jammed (MRJ) packings can in part be explained by a shortcoming in generating exactly-jammed configurations due to a type of "critical slowing down" as the necessary rearrangements become difficult to realize by numerical protocols. Additionally, various protocols are able to produce packings exhibiting hyperuniformity to different extents, but this is because certain protocols are better able to approach exactly-jammed configurations. Nonetheless, while one should not generally expect exact hyperuniformity for disordered packings with rattlers, we find that when jamming is ensured, our packings are very nearly hyperuniform, and deviations from hyperuniformity correlate with an inability to ensure jamming, suggesting that strict jamming and hyperuniformity are indeed linked. This raises the possibility that the ideal MRJ packings have no rattlers. Our work provides the impetus for the development of packing algorithms that produce large disordered strictly jammed packings that are rattler-free.Comment: 15 pages, 11 figures. Accepted for publication in Phys. Rev.

Popularity on the 3D-Euclidean Stable Roommates

We study the 3D-Euclidean Multidimensional Stable Roommates problem, which asks whether a given set $V$ of $s\cdot n$ agents with a location in 3-dimensional Euclidean space can be partitioned into $n$ disjoint subsets $\pi = \{R_1 ,\dots , R_n\}$ with $|R_i| = s$ for each $R_i \in \pi$ such that $\pi$ is (strictly) popular, where $s$ is the room size. A partitioning is popular if there does not exist another partitioning in which more agents are better off than worse off. Computing a popular partition in a stable roommates game is NP-hard, even if the preferences are strict. The preference of an agent solely depends on the distance to its roommates. An agent prefers to be in a room where the sum of the distances to its roommates is small. We show that determining the existence of a strictly popular outcome in a 3D-Euclidean Multidimensional Stable Roommates game with room size $3$ is co-NP-hard.Comment: 27 pages, 23 figure

Application of Experimental Modal Analysis to Determine Damping Properties for Stacked Corrugated Boxes

Multilayer stacked corrugated packaging boxes are a common shipping mode in packaging distribution. This study discusses how to determine the damping properties of stacked corrugated boxes using experimental modal analysis (EMA). Prior to the calculation of damping properties, two MATLAB-based digital filters were applied to process the sampled original signals. Both the logarithmic method and the curve fit method are used to compute the multiple damping ratios from the acceleration and displacement response data after the excitation. The study found that the viscous damping and dry friction damping take place in a different time frame in stacked corrugated boxes. This study recommends using the curve fit method to determine damping properties for a multiple-degree-of-freedom system such as stacked corrugated boxes

ArraySearch: A Web-Based Genomic Search Engine

Recent advances in microarray technologies have resulted in a flood of genomics data. This large body of accumulated data could be used as a knowledge base to help researchers interpret new experimental data. ArraySearch finds statistical correlations between newly observed gene expression profiles and the huge source of well-characterized expression signatures deposited in the public domain. A search query of a list of genes will return experiments on which the genes are significantly up- or downregulated collectively. Searches can also be conducted using gene expression signatures from new experiments. This resource will empower biological researchers with a statistical method to explore expression data from their own research by comparing it with expression signatures from a large public archive

Interaction-induced mode switching in steady-state microlasers

We demonstrate that due to strong modal interactions through cross-gain saturation, the onset of a new lasing mode can switch off an existing mode via a negative power slope. In this process of interaction-induced mode switching (IMS) the two involved modes maintain their identities, i.e. they do not change their spatial field patterns or lasing frequencies. For a fixed pump profile, a simple analytic criterion for the occurrence of IMS is given in terms of their self- and cross-interaction coefficients and non-interacting thresholds, which is verified for the example of a two-dimensional microdisk laser. When the spatial pump profile is varied as the pump power is increased, IMS can be induced even when it would not occur with a fixed pump profile, as we show for two coupled laser cavities. Our findings apply to steady-state lasing and are hence different from dynamical mode switching or hopping. IMS may have potential applications in robust and flexible all-optical switching.Comment: 14 pages, 5 figure

Genetic diversity and core subset selection in ex situ seed collections of the banana crop wild relative Musa balbisiana

Crop wild relatives (CWRs) play a key role in crop breeding by providing beneficial trait characteristics for improvement of related crops. CWRs are more efficiently used in breeding if the plant material is genetically characterized, but the diversity in CWR genetic resources has often poorly been assessed. Seven seed collections of Musa balbisiana, an important CWR of dessert and cooking bananas, originating from three natural populations, two feral populations and two ex situ field collections were retrieved and their genetic diversity was quantified using 18 microsatellite markers to select core subsets that conserve the maximum genetic diversity. The highest genetic diversity was observed in the seed collections from natural populations of Yunnan, a region that is part of M. balbisiana's centre of origin. The seeds from the ex situ field collections were less genetically diverse, but contained unique variation with regards to the diversity in all seed collections. Seeds from feral populations displayed low genetic diversity. Core subsets that maximized genetic distance incorporated almost no seeds from the ex situ field collections. In contrast, core subsets that maximized allelic richness contained seeds from the ex situ field collections. We recommend the conservation and additional collection of seeds from natural populations, preferentially originating from the species' region of origin, and from multiple individuals in one population. We also suggest that the number of seeds used for ex situ seed bank regeneration must be much higher for the seed collections from natural populations

Upscaling key ecosystem functions across the conterminous United States by a water-centric ecosystem model

We developed a water-centric monthly scale simulation model (WaSSI-C) by integrating empirical water and carbon flux measurements from the FLUXNET network and an existing water supply and demand accounting model (WaSSI). The WaSSI-C model was evaluated with basin-scale evapotranspiration (ET), gross ecosystem productivity (GEP), and net ecosystem exchange (NEE) estimates by multiple independent methods across 2103 eight-digit Hydrologic Unit Code watersheds in the conterminous United States from 2001 to 2006. Our results indicate that WaSSI-C captured the spatial and temporal variability and the effects of large droughts on key ecosystem fluxes. Our modeled mean (±standard deviation in space) ET (556 ± 228 mm yr−1) compared well to Moderate Resolution Imaging Spectroradiometer (MODIS) based (527 ± 251 mm yr−1) and watershed water balance based ET (571 ± 242 mm yr−1). Our mean annual GEP estimates (1362 ± 688 g C m−2 yr−1) compared well (R2 = 0.83) to estimates (1194 ± 649 g C m−2 yr−1) by eddy flux-based EC-MOD model, but both methods led significantly higher (25–30%) values than the standard MODIS product (904 ± 467 g C m−2 yr−1). Among the 18 water resource regions, the southeast ranked the highest in terms of its water yield and carbon sequestration capacity. When all ecosystems were considered, the mean NEE (−353 ± 298 g C m−2 yr−1) predicted by this study was 60% higher than EC-MOD\u27s estimate (−220 ± 225 g C m−2 yr−1) in absolute magnitude, suggesting overall high uncertainty in quantifying NEE at a large scale. Our water-centric model offers a new tool for examining the trade-offs between regional water and carbon resources under a changing environment

Dual-Polarized Communication Rectenna Array for Simultaneous Wireless Information and Power Transmission

A dual-polarized communication rectenna array with high isolation and low cross polarization for simultaneous wireless information and power transmission (SWIPT) is presented. It consists of a 2 × 2 element receiving antenna array and a high efficiency rectifier based on voltage doubler topology. The receiving element is corner-fed to achieve high isolation of more than 20 dB between the dual-polarized ports, which guarantees low mutual interference between the communication and the rectifying ports. To receive enough electromagnetic (EM) wave for rectifying and meanwhile meet the communication sensitivity, this 2 × 2 array uses its 2 × 2 vertical polarization ports and 1 × 2 horizontal polarization ports for power rectifying, and the rest 1 × 2 horizontal polarization ports for communication. For the communication port, the measured gain is 10.9 dBi and the cross polarization is less than -20 dB. The performance of the whole communication rectenna array has been measured, where a 2 × 4 circularly-polarized array with a gain of 17.5 dBi, settled 1 meter away is used as the transmitter. Measured results show that the system achieves a peak microwave - direct circuit (mw-dc) conversion efficiency of 74.9 % for the CW signal, and 67 % for the QPSK signal with 10 MHz channel bandwidth on the load of 345 Ω at 2.58 GHz operating frequency

Evolutionary History of Mammalian Transposons Determined by Genome-Wide Defragmentation

The constant bombardment of mammalian genomes by transposable elements (TEs) has resulted in TEs comprising at least 45% of the human genome. Because of their great age and abundance, TEs are important in comparative phylogenomics. However, estimates of TE age were previously based on divergence from derived consensus sequences or phylogenetic analysis, which can be unreliable, especially for older more diverged elements. Therefore, a novel genome-wide analysis of TE organization and fragmentation was performed to estimate TE age independently of sequence composition and divergence or the assumption of a constant molecular clock. Analysis of TEs in the human genome revealed ∼600,000 examples where TEs have transposed into and fragmented other TEs, covering >40% of all TEs or ∼542 Mbp of genomic sequence. The relative age of these TEs over evolutionary time is implicit in their organization, because newer TEs have necessarily transposed into older TEs that were already present. A matrix of the number of times that each TE has transposed into every other TE was constructed, and a novel objective function was developed that derived the chronological order and relative ages of human TEs spanning >100 million years. This method has been used to infer the relative ages across all four major TE classes, including the oldest, most diverged elements. Analysis of DNA transposons over the history of the human genome has revealed the early activity of some MER2 transposons, and the relatively recent activity of MER1 transposons during primate lineages. The TEs from six additional mammalian genomes were defragmented and analyzed. Pairwise comparison of the independent chronological orders of TEs in these mammalian genomes revealed species phylogeny, the fact that transposons shared between genomes are older than species-specific transposons, and a subset of TEs that were potentially active during periods of speciation