Physical Sciences and Mathematics Commons^™

Relativistic Three-Dimensional Lippman-Schwinger Cross Sections For Space Radiation Applications, Charles M. Werneth, Xiaojing Xu, Ryan B. Norman, Khin M. Maung

Faculty Publications

Radiation transport codes require accurate nuclear cross sections to compute particle fluences inside shielding materials. The Tripathi semi-empirical reaction cross section, which includes over 60 parameters tuned to nucleon-nucleus (NA) and nucleus-nucleus (AA) data, has been used in many of the world’s best-known transport codes. Although this parameterization fits well to reaction cross section data, the predictive capability of any parameterization is questionable when it is used beyond the range of the data to which it was tuned. Using uncertainty analysis, it is shown that a relativistic three-dimensional Lippmann-Schwinger (LS3D) equation model based on Multiple Scattering Theory (MST) that uses …

Homogenization Techniques For Population Dynamics In Strongly Heterogeneous Landscapes, Brian P. Yurk, Christina A. Cobbold

Faculty Publications

An important problem in spatial ecology is to understand how population-scale patterns emerge from individual-level birth, death, and movement processes. These processes, which depend on local landscape characteristics, vary spatially and may exhibit sharp transitions through behavioural responses to habitat edges, leading to discontinuous population densities. Such systems can be modelled using reaction–diffusion equations with interface conditions that capture local behaviour at patch boundaries. In this work we develop a novel homogenization technique to approximate the large-scale dynamics of the system. We illustrate our approach, which also generalizes to multiple species, with an example of logistic growth within a periodic …

Erratum: First Search For Gravitational Waves From Known Pulsars With Advanced Ligo (Astrophysical Journal (2017) 839 (12) Doi: 10.3847/1538-4357/Aa677f), B. P. Abbott, R. Abbott, T. D. Abbott, M. R. Abernathy, F. Acernese, K. Ackley, C. Adams, T. Adams, P. Addesso, R. X. Adhikari, V. B. Adya, C. Affeldt, M. Agathos, K. Agatsuma, N. Aggarwal, O. D. Aguiar, L. Aiello, A. Ain, P. Ajith, B. Allen, A. Allocca, P. A. Altin, A. Ananyeva, S. B. Anderson, W. G. Anderson, S. Appert, K. Arai, M. C. Araya, J. S. Areeda, N. Arnaud, K. G. Arun, Tiffany Z. Summerscales

Faculty Publications

© 2017. The American Astronomical Society. All rights reserved. There is an error in Equation?(4) of the original paper, which should instead be (Formula Presented) This makes it consistent with Equation?(3) of Aasi et al. (2014), which was actually used when calculating the value of the Q22 upper limits from the h0 upper limits for the results of this paper.

Dinoflagellate Cysts Track Eutrophication In The Northern Gulf Of Mexico, Andrea M. Price, Melissa M. Baustian, R. Eugene Turner, Nancy N. Rabalais, Gail L. Chmura

Faculty Publications

We examined organic-walled dinoflagellate cysts from one 210Pb-dated sediment core and 39 surface sediment samples from the northern Gulf of Mexico to determine the relationship between nutrient enrichment and cyst assemblages in this region characterized by oxygen deficiency. The core spans from 1962 to 1997 and its sampling location is directly influenced by the Mississippi River plume. Surface sediments were collected in 2006, 2007, 2008, and 2014 and represent approximately 1 to 4 years of accumulation. A total of 57 cyst taxa were recorded, and four heterotrophic taxa in particular were found to increase in the top section (1986–1997) of …

Comparison Of Ecosystem Processes In A Woodland And Prairie Pond With Different Hydroperiods, Daniel J. Hornbach, Mark C. Hove, Mira W. Ensley-Field, Matthew R. Glasenapp, Ian A. Goodbar, J. Douglas Harman, Benjamin D. Huber, Emily A. Kangas, Kira X. Liu, Molly Stark-Ragsdale, Long K. Tran

Faculty Publications

Shallow lakes and ponds constitute a significant number of water bodies worldwide. Many are heterotrophic, indicating that they are likely net contributors to global carbon cycling. Climate change is likely to have important impacts on these waterbodies. In this study, we examined two small Minnesota ponds; a permanent woodland pond and a temporary prairie pond. The woodland pond had lower levels of phosphorus and phytoplankton than the prairie pond. Using the open water oxygen method, we found the prairie pond typically had a higher level of gross primary production (GPP) and respiration (R) than the woodland pond, although the differences …

Deep Subaru Hyper Suprime-Cam Observations Of Milky Way Satellites Columba I And Triangulum Ii*, Jeffrey Carlin, David Sand, Ricardo Muñoz, Kristine Spekkens, Beth Willman, Denija Crnojević, Duncan Forbes, Jonathan Hargis, Evan Kirby, Annika Peter, Aaron Romanowsky, Jay Strader

Faculty Publications

We present deep, wide-field Subaru Hyper Suprime-Cam photometry of two recently discovered satellites of the Milky Way (MW): Columba I (Col I) and Triangulum II (Tri II). The color–magnitude diagrams of both objects point to exclusively old and metal-poor stellar populations. We re-derive structural parameters and luminosities of these satellites, and find for Col I and for Tri II, with corresponding half-light radii of pc and pc. The properties of both systems are consistent with observed scaling relations for MW dwarf galaxies. Based on archival data, we derive upper limits on the neutral gas content of these dwarfs, and find …

Thresholds Of Sea-Level Rise Rate And Sea-Level Rise Acceleration Rate In A Vulnerable Coastal Wetland, Wei Wu, Patrick D. Biber, Matthew Bethel

Faculty Publications

Feedbacks among inundation, sediment trapping, and vegetation productivity help maintain coastal wetlands facing sea-level rise (SLR). However, when the SLR rate exceeds a threshold, coastal wetlands can collapse. Understanding the threshold helps address key challenges in ecology—nonlinear response of ecosystems to environmental change, promotes communication between ecologists and resource managers, and facilitates decision-making in climate change policies. We studied the threshold of SLR rate and developed a new threshold of SLR acceleration rate on sustainability of coastal wetlands as SLR is likely to accelerate due to enhanced anthropogenic forces. Deriving these two thresholds depends on the temporal scale, the interaction …

Accuracy Analysis Comparison Of Supervised Classification Methods For Anomaly Detection On Levees Using Sar Imagery, Ramakalavathi Marapareddy, James V. Aanstoos, Nicolas H. Younan

Faculty Publications

This paper analyzes the use of a synthetic aperture radar (SAR) imagery to support levee condition assessment by detecting potential slide areas in an efficient and cost-effective manner. Levees are prone to a failure in the form of internal erosion within the earthen structure and landslides (also called slough or slump slides). If not repaired, slough slides may lead to levee failures. In this paper, we compare the accuracy of the supervised classification methods minimum distance (MD) using Euclidean and Mahalanobis distance, support vector machine (SVM), and maximum likelihood (ML), using SAR technology to detect slough slides on earthen levees. …

Hydrogen-Bonding-Directed Ordered Assembly Of Carboxylated Poly(3-Alkylthiophene)S, David W. Bilger, Jose A. Figueroa, Neil D. Redeker, Amrita Sarkar, Morgan Stefik, Shanjuu Zhang

Faculty Publications

Hydrogen-bonding-induced ordered assembly of poly(3-alkylthiophene)s derivatives bearing carboxylic acid groups has been investigated from diluted and concentrated solutions to solid films using ultraviolet–visible absorption spectroscopy, polarized optical microscopy, and four-point probe conductivity measurements. In dilute solutions, the polymer undergoes a spontaneous structural transition from disordered coil-like to ordered rodlike conformations, which is evidenced by time-dependent chromism. Many factors such as alkyl-chain length, types of solvents, and temperature are studied to understand the assembly behavior. Transition kinetics of the assembly process reveals a universal second-order rate law, indicating an intermolecular origin due to hydrogen bonding. When more concentrated, hydrogen bonding drives …

Bare Aluminum Oxidation, R. Steven Turley

Faculty Publications

This paper computes the oxidation rate of bare evaporated aluminum thin films under high vacuum conditions and exposed to air.

Perspectives On Chemical Oceanography In The 21st Century: Participants Of The Come Aboard Meeting Examine Aspects Of The Field In The Context Of 40 Years Of Disco, Andrea J. Fassbender, Hilary I. Palevsky, Todd R. Martz, Anitra E. Ingalls, Martha Gledhill, Sarah E. Fawcett, Jay A. Brandes, Lihini I. Aluwihare, The Participants Of Come Aboard, Disco Xxv, Christopher T. Hayes

Faculty Publications

The questions that chemical oceanographers prioritize over the coming decades, and the methods we use to address these questions, will define our field's contribution to 21st century science. In recognition of this, the U.S. National Science Foundation and National Oceanic and Atmospheric Administration galvanized a community effort (the Chemical Oceanography MEeting: A BOttom-up Approach to Research Directions, or COME ABOARD) to synthesize bottom-up perspectives on selected areas of research in Chemical Oceanography. Representing only a small subset of the community, COME ABOARD participants did not attempt to identify targeted research directions for the field. Instead, we focused on how best …

Initial Mass Function Variability (Or Not) Among Low-Velocity Dispersion, Compact Stellar Systems, Alexa Villaume, Jean Brodie, Charlie Conroy, Aaron Romanowsky, Pieter Van Dokkum

Faculty Publications

Analyses of strong gravitational lenses, galaxy-scale kinematics, and absorption-line stellar population synthesis (SPS) have all concluded that the stellar initial mass function (IMF) varies within the massive early-type galaxy (ETG) population. However, the physical mechanism that drives variation in the IMF is an outstanding question. Here we use new SPS models to consider a diverse set of compact, low-velocity dispersion stellar systems: globular clusters (GCs), an ultra-compact dwarf (UCD), and the compact elliptical (cE) galaxy M32. We compare our results to massive ETGs and available dynamical measurements. We find that the GCs have stellar mass-to-light ratios (M/L) that are either …

Power-Law Schell-Model Sources, Milo W. Hyde Iv

Faculty Publications

A new type of Schell-model source is developed that has a spectral degree of coherence, or spatial power spectrum, which is described by a power-law function. These power-law sources generally produce cusped, or peaked far-zone spectral density patterns making them potentially useful in directed energy applications. The spectral degrees of coherence, spatial power spectra, and spatial coherence radii for power-law sources are derived and discussed. Two power-law sources are then synthesized in the laboratory using a liquid crystal spatial light modulator. The experimental spectral densities are compared to the corresponding theoretical predictions to serve as a proof of concept.

Blockade Of Cb1 Cannabinoid Receptor Alters Gut Microbiota And Attenuates Inflammation And Diet-Induced Obesity, Pegah Mehrpouya-Bahrami, Kumaraswamy Naidu Chitrala, Mitra S. Ganewatta, Chuanbing Tang, E Angela Murphy, Reilly Enos, Kandy T. Velazquez, Jamie Mccellan, Mitzi Nagarkatti, Prakash Nagarkatti

Faculty Publications

Obesity is characterized by chronic low-grade, systemic inflammation, altered gut microbiota, and gut barrier disruption. Additionally, obesity is associated with increased activity of endocannabinoid system (eCB). However, the clear connection between gut microbiota and the eCB system in the regulation of energy homeostasis and adipose tissue inflammation and metabolism, remains to be established. We investigated the effect of treatment of mice with a cannabinoid receptor 1 (CB1) antagonist on Diet-Induced Obesity (DIO), specifically whether such a treatment that blocks endocannabinoid activity can induce changes in gut microbiota and anti-inflammatory state in adipose tissue. Blockade of CB1 attenuated DIO, inflammatory cytokines …

Reconstructing Yeasts Phylogenies And Ancestors From Whole Genome Data, Bing Feng, Yu Ling, Lingxi Zhou, Roufan Xia, Fei Hu, Chao Liu

Faculty Publications

Phylogenetic studies aim to discover evolutionary relationships and histories. These studies are based on similarities of morphological characters and molecular sequences. Currently, widely accepted phylogenetic approaches are based on multiple sequence alignments, which analyze shared gene datasets and concatenate/coalesce these results to a final phylogeny with maximum support. However, these approaches still have limitations, and often have conflicting results with each other. Reconstructing ancestral genomes helps us understand mechanisms and corresponding consequences of evolution. Most existing genome level phylogeny and ancestor reconstruction methods can only process simplified real genome datasets or simulated datasets with identical genome content, unique genome markers, …

Reconstructing Yeasts Phylogenies And Ancestors From Whole Genome Data, Bing Feng, Yu Lin, Lingxi Zhou, Yan Guo, Robert Friedman, Roufan Xia, Chao Liu, Jijun Tang

Faculty Publications

Phylogenetic studies aim to discover evolutionary relationships and histories. These studies are based on similarities of morphological characters and molecular sequences. Currently, widely accepted phylogenetic approaches are based on multiple sequence alignments, which analyze shared gene datasets and concatenate/coalesce these results to a final phylogeny with maximum support. However, these approaches still have limitations, and often have conflicting results with each other. Reconstructing ancestral genomes helps us understand mechanisms and corresponding consequences of evolution. Most existing genome level phylogeny and ancestor reconstruction methods can only process simplified real genome datasets or simulated datasets with identical genome content, unique genome markers, …

A Colorimetric Competitive Displacement Assay For The Evaluation Of Catalytic Peptides, Anneliese Gest, Erika M. Aguiluz, Malik T. Mays, Xinyu Liu, Eliza K. Neidhart, Leah S. Witus

Faculty Publications

No abstract provided.

Teaching Stats For Data Science, Daniel Kaplan

Faculty Publications

“Data science” is a useful catchword for methods and concepts original to the field of statistics, but typically being applied to large, multivariate, observational records. Such datasets call for techniques not often part of an introduction to statistics: modeling, consideration of covariates, sophisticated visualization, and causal reasoning. This article re-imagines introductory statistics as an introduction to data science and proposes a sequence of 10 blocks that together compose a suitable course for extracting information from contemporary data. Recent extensions to the mosaic packages for R together with tools from the “tidyverse” provide a concise and readable notation for wrangling, visualization, …

Climate Process Team On Internal Wave-Driven Ocean Mixing, Jennifer A. Mackinnon, Zhongxiang Zhao, Caitlin B. Whalen, Amy F. Waterhouse, David S. Trossman, Oliver M. Sun, Louis C. St. Laurent, Harper L. Simmons, Kurt Polzin, Robert Pinkel, Andrew Pickering, Nancy J. Norton, Jonathan D. Nash, Ruth Musgrave, Lynne M. Merchant, Angelique V. Melet, Benjamin Mater, Sonya Legg, Willima G. Large, Eric Kunze, Jody M. Klymak, Markus Jochum, Steven R. Jayne, Robert W. Hallberg, Stephen M. Griffies, Steve Diggs, Gokhan Danabasoglu, Eric P. Chassignet, Maarten C. Buijsman, Frank O. Bryan, Bruce P. Briegleb, Andrew Barna, Brian K. Arbic, Joseph K. Ansong, Matthew H. Alford

Faculty Publications

The study summarizes recent advances in our understanding of internal wave–driven turbulent mixing in the ocean interior and introduces new parameterizations for global climate ocean models and their climate impacts.

Single-Reference Coupled Cluster Theory For Multi-Reference Problems, Johannes T. Margraf, Ajith Perera, Jesse J. Lutz, Rodney J. Bartlett

Faculty Publications

Coupled cluster (CC) theory is widely accepted as the most accurate and generally applicable approach in quantum chemistry. CC calculations are usually performed with single Slater-determinant references, e.g., canonical Hartree-Fock (HF) wavefunctions, though any single determinant can be used. This is an attractive feature because typical CC calculations are straightforward to apply, as there is no potentially ambiguous user input required. On the other hand, there can be concern that CC approximations give unreliable results when the reference determinant provides a poor description of the system of interest, i.e., when the HF or any other single determinant ground state has …

Why Cerenkov Radiation May Not Occur, Even When It Is Allowed By Lorentz-Violating Kinematics, Brett Altschul

Faculty Publications

In a Lorentz-violating quantum field theory, the energy-momentum relations for the field quanta are typically modified. This affects the kinematics, and processes that are normally forbidden may become allowed. One reaction that clearly becomes kinematically possible when photons’ phase speeds are less than 1 is vacuum Cerenkov radiation. However, in spite of expectations, and in defiance of phase space estimates, a electromagnetic Chern–Simons theory with a timelike Lorentz violation coefficient does not feature any energy losses through Cerenkov emission. There is an unexpected cancelation, made possible by the existence of unstable long-wavelength modes of the field. The fact that the …

Atomic Disorder Induced Modification Of Magnetization In Mncrval, Juliana Herran, Rishabh Dalal, Paul Gray, Parashu Kharel, Pavel Lukashev

Faculty Publications

We have investigated the physical mechanism behind magnetization reduction in a potential spingapless semiconducting compound MnCrVAl by analyzing various atomic disorder schemes. In particular, we show that depending on the degree of disorder, exchanging atomic positions between Mn/Cr and V/Al leads to reduced total magnetization due to either spin flip, or vanishing spin magnetic moments. The latter is attributed to the itinerant character of magnetism in Cr-, Mn-, and V-containing Heusler alloys, and to the frustration of antiferromagnetic exchange interactions, and is accompanied by a tetragonal distortion, but such distortion alone (i.e., in a fully ordered crystal, with no atomic …

Phylogeny Analysis From Gene-Order Data With Massive Duplications, Lingxi Zhou, Yu Ling, Bing Feng, Jieyi Zhao, Jijun Tang

Faculty Publications

Background: Gene order changes, under rearrangements, insertions, deletions and duplications, have been used as a new type of data source for phylogenetic reconstruction. Because these changes are rare compared to sequence mutations, they allow the inference of phylogeny further back in evolutionary time. There exist many computational methods for the reconstruction of gene-order phylogenies, including widely used maximum parsimonious methods and maximum likelihood methods. However, both methods face challenges in handling large genomes with many duplicated genes, especially in the presence of whole genome duplication.

Methods: In this paper, we present three simple yet powerful methods based on maximum-likelihood (ML) …

Soil Carbon Cycling Proxies: Understanding Their Critical Role In Predicting Climate Change Feedbacks, Vanessa L. Bailey, Ben Bond-Lamberty, Kristen M. Deangelis, A. Stuart Grandy, Christine V. Hawkes, Kate Heckman, Kate Lajtha, Richard P. Phillips, Benjamin N. Sulman, Katherine E. O. Todd-Brown, Matthew D. Wallenstein

Faculty Publications

The complexity of processes and interactions that drive soil C dynamics necessitate the use of proxy variables to represent soil characteristics that cannot be directly measured (correlative proxies), or that aggregate information about multiple soil characteristics into one variable (integrative proxies). These proxies have proven useful for understanding the soil C cycle, which is highly variable in both space and time, and are now being used to make predictions of the fate and persistence of C under future climate scenarios. However, the C pools and processes that proxies represent must be thoughtfully considered in order to minimize uncertainties in empirical …

Formal Performance Guarantees For An Approach To Human In The Loop Robot Missions, Damian Lyons, Ron Arkin, Shu Jiang, Matt O'Brien, Feng Tang, Peng Tang

Faculty Publications

Abstract— A key challenge in the automatic verification of robot mission software, especially critical mission software, is to be able to effectively model the performance of a human operator and factor that into the formal performance guarantees for the mission. We present a novel approach to modelling the skill level of the operator and integrating it into automatic verification using a linear Gaussians model parameterized by experimental calibration. Our approach allows us to model different skill levels directly in terms of the behavior of the lumped, robot plus operator, system.

Using MissionLab and VIPARS (a behavior-based robot mission verification …

Use Of A Novel Infrared Wavelength-Tunable Laser Mueller-Matrix Polarimetric Scatterometer To Measure Nanostructured Optical Materials, Jason C. Vap, Stephen E. Nauyoks, Michael R. Benson, Michael A. Marciniak

Faculty Publications

Nanostructured optical materials, for example, metamaterials, have unique spectral, directional, and polarimetric properties. Samples designed and fabricated for infrared (IR) wavelengths have been characterized using broadband instruments to measure specular polarimetric transmittance or reflectance as in ellipsometry or integrated hemisphere transmittance or reflectance. We have developed a wavelength-tunable IR Mueller-matrix (Mm) polarimetric scatterometer which uses tunable external-cavity quantum-cascade lasers (EC-QCLs) to tune onto and off of the narrowband spectral resonances of nanostructured optical materials and performed full polarimeteric and directional evaluation to more fully characterize their behavior. Using a series of EC-QCLs, the instrument is tunable over 4.37-6.54 μm wavelengths …

A Framework For Recommendation Of Highly Popular News Lacking Social Feedback, Nuno Moniz, Luís Torgo, Magdalini Eirinaki, Paula Branco

Faculty Publications

Social media is rapidly becoming the main source of news consumption for users, raising significant challenges to news aggregation and recommendation tasks. One of these challenges concerns the recommendation of very recent news. To tackle this problem, approaches to the prediction of news popularity have been proposed. In this paper, we study the task of predicting news popularity upon their publication, when social feedback is unavailable or scarce, and to use such predictions to produce news rankings. Unlike previous work, we focus on accurately predicting highly popular news. Such cases are rare, causing known issues for standard prediction models and …

Spin-Imbalance In A 2d Fermi-Hubbard System, Peter Brown, Debayan Mitra, Elmer Guardado-Sanchez, Peter Schauß, Stanimir Kondov, Ehsan Khatami, Thereza Paiva, Nandini Trivedi, David Huse, Waseem Bakr

Faculty Publications

The interplay of strong interactions and magnetic fields gives rise to unusual forms of superconductivity and magnetism in quantum many-body systems. Here, we present an experimental study of the two-dimensional Fermi-Hubbard model—a paradigm for strongly correlated fermions on a lattice—in the presence of a Zeeman field and varying doping. Using site-resolved measurements, we revealed anisotropic antiferromagnetic correlations, a precursor to long-range canted order. We observed nonmonotonic behavior of the local polarization with doping for strong interactions, which we attribute to the evolution from an antiferromagnetic insulator to a metallic phase. Our results pave the way to experimentally mapping the low-temperature …

Fungal Community Homogenization, Shift In Dominant Trophic Guild, And Appearance Of Novel Taxa With Biotic Invasion, Mark A. Anthony, Serita D. Frey, Kristina A. Stinson

Faculty Publications

Invasion by non-native plants may fundamentally restructure the soil fungal community. The invasive plant, Alliaria petiolata, produces secondary compounds suppressive to mycorrhizal fungi and may therefore be expected to have generally negative effects on other components of the fungal community. Here, we compared fungal biomass, diversity, community composition, and the relative abundance of fungal trophic guilds, along with edaphic properties of soils collected from uninvaded and invaded plots across six temperate forests. Invaded plots were differentiated from uninvaded plots by lower variation in fungal community composition (beta diversity) and soil properties, higher fungal richness and community evenness (alpha diversity), and …

Improvement Of Phylogenetic Method To Analyze Compositional Heterogeneity, Zehua Zhang, Kecheng Guo, Gaofeng Pan, Jijun Tang, Fei Guo

Faculty Publications

Background: Phylogenetic analysis is a key way to understand current research in the biological processes and detect theory in evolution of natural selection. The evolutionary relationship between species is generally reflected in the form of phylogenetic trees. Many methods for constructing phylogenetic trees, are based on the optimization criteria. We extract the biological data via modeling features, and then compare these characteristics to study the biological evolution between species.

Results: Here, we use maximum likelihood and Bayesian inference method to establish phylogenetic trees; multi-chain Markov chain Monte Carlo sampling method can be used to select optimal phylogenetic tree, resolving local …