Article
Biochemistry & Molecular Biology
Apurva Badkas, Sebastien De Landtsheer, Thomas Sauter
Summary: Glioblastoma multiforme (GBM), a challenging disease with a poor prognosis, exhibits high molecular heterogeneity and limited therapeutic options. This study used network-based analysis to identify key proteins in GBM and proposed 18 novel candidate proteins based on their expression, mutation, and survival analysis. Further investigations are needed to determine their functional roles, clinical relevance, and potential as therapeutic targets in GBM.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Multidisciplinary Sciences
Xiaoli Xue, Wei Zhang, Anjing Fan
Summary: This paper proposes a novel strategy for identifying key proteins by constructing reliable protein-protein interaction (PPI) networks. Five Gene Ontology (GO)-based semantic similarity measurements are used to calculate the confidence scores for protein pairs, and the refined PPI networks are constructed by filtering low-confidence links. Six topology-based centrality methods are applied to test the performance of the measurements under the original and refined networks. The results show that the performance of the centrality methods is relatively better under the refined PPI networks, with Resnik using BP annotation term performing the best.
Article
Zoology
Miriam O. Bayer, Winsor H. Lowe
Summary: This study investigated the impact of salamanders on macroinvertebrate communities in headwater streams. The results suggest that salamanders can exert top-down control on benthic macroinvertebrates in fishless headwater streams, but this effect is species-dependent and can be mitigated by intraguild interactions.
Article
Ergonomics
Keneth Morgan Kwayu, Valerian Kwigizile, Kevin Lee, Jun-Seok Oh
Summary: This study utilizes crash narratives from a ten-year dataset of Michigan traffic fatal crash narratives to identify prevalent themes and interactions using structural topic modeling and network topology analysis. The centrality and association between topics varied across crash types, with event-related topics consistently central in articulating the crash occurrence. The high classification accuracy of extracted latent themes in classifying crashes by type suggests effective automation of crash typing and consistency checks.
ACCIDENT ANALYSIS AND PREVENTION
(2021)
Article
Chemistry, Multidisciplinary
Nicholas S. DiBrita, Khouloud Eledlebi, Hanno Hildmann, Lucas Culley, A. F. Isakovic
Summary: Temporal network analysis and the time evolution of network characteristics are used in this paper to study the changing topology of dynamic networks, specifically focusing on the impact of impenetrable obstacles and environmental noise on connectivity and overall network structure in Voronoi-type spatial coverage. The study shows how these approaches illustrate differences in energy and time efficiency trade-offs in network coverage and compares them with more concrete classification variables like percent area covered and cumulative distance traveled.
APPLIED SCIENCES-BASEL
(2022)
Article
Engineering, Environmental
Robert Sitzenfrei
Summary: A novel complex network analysis-based approach for high-computational efficiency water quality assessment in a water distribution system is developed and successfully applied in a design study. The proposed model can identify design solutions exceeding water quality thresholds with a computational efficiency significantly better than state-of-the-art models.
Article
Engineering, Electrical & Electronic
Rajarshi Dutta, Saikat Chakrabarti, Ankush Sharma
Summary: This paper proposes a data-driven topology tracking algorithm for active distribution networks to address the issue of topology detection caused by communication failure and data packet loss in distribution networks. The algorithm utilizes l(1) norm regularization and sparse mu PMUs phasor samples to detect changes in network topology.
IEEE TRANSACTIONS ON POWER SYSTEMS
(2021)
Article
Business, Finance
Qifa Xu, Mengting Li, Cuixia Jiang
Summary: The study introduced a novel network-augmented time-varying parametric portfolio selection model, which improved performance by constructing financial networks, extracting topological characteristics, and applying it to an empirical study of the Shanghai Stock Exchange 50 Index in China. The model outperformed traditional portfolio selection models in terms of standard deviation, Sharpe ratio, and efficient frontier, demonstrating the significance of stock network topological characteristics on portfolio selection.
NORTH AMERICAN JOURNAL OF ECONOMICS AND FINANCE
(2021)
Article
Biology
Tad A. Dallas, Pedro Jordano
Summary: This study examined the conservation of species' roles in host-parasite networks using a global occurrence database of helminth parasites, finding that the majority of species' roles are not conserved. This suggests that species' roles may be influenced by spatial and environmental gradients, as well as the context of the local host and helminth parasite community.
PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
(2021)
Article
Automation & Control Systems
Huayi Wu, Zhao Xu, Jian Zhao, Songjian Chai
Summary: Due to limited monitoring and measurement devices, timely identification of distribution grid topology has been a challenge. Therefore, this article proposes a power grid topological generative adversarial network (Gridtopo-GAN) model to identify the distribution grid topology with limited measurements. The model efficiently handles large-scale systems with different topological configurations by leveraging the topology preserved node embedding architecture and the generative capability of GAN. Numerical simulations on various distribution systems demonstrate the effectiveness and efficiency of the proposed topology identification model.
IEEE TRANSACTIONS ON INDUSTRIAL INFORMATICS
(2023)
Article
Ecology
Jeffrey W. Doser, Andrew O. Finley, Sudipto Banerjee
Summary: Determining the spatial distributions of species and communities is important in ecology and conservation efforts. We developed a spatial factor multi-species occupancy model to explicitly account for species correlations, imperfect detection, and spatial autocorrelation. Ignoring these complexities leads to inferior model predictive performance, and our proposed model had the highest predictive performance among the alternative models.
Article
Energy & Fuels
Liwen Qin, Xiaoyong Yu, Haitao Gui, Lifang Wu, Shifeng Ou
Summary: This paper proposes a distribution network measurement super-resolution model based on GCN, which can achieve distribution network situation awareness with limited measurements and perform well when the distribution network topology changes.
Article
Ecology
Marco Tulio Oropeza-Sanchez, Ireri Suazo-Ortuno, Julieta Benitez-Malvido, Roberto Munguia-Steyer
Summary: This study evaluated the seasonal variation of the occupation area of the threatened salamander, Ambystoma ordinarium, along its distribution range using an environmental multiscale approach. The results showed that detection and occupation probability of A. ordinarium are seasonally associated with different environmental variables.
POPULATION ECOLOGY
(2021)
Article
Ecology
Graziella V. DiRenzo, David A. W. Miller, Blake R. Hossack, Brent H. Sigafus, Paige E. Howell, Erin Muths, Evan H. C. Grant
Summary: First-order dynamic occupancy models (FODOMs) capture ecological dynamics caused by covariates, but can be extended with a second-order Markov process to incorporate site memory when covariates are not available. This modeling framework allows for reliable inference on site occupancy, colonization, extinction, turnover, and detection probabilities.
Article
Computer Science, Artificial Intelligence
Manuel Lozano, Francisco J. Rodriguez
Summary: This paper presents a method for reconstructing network topology from betweenness centrality values, using an artificial bee colony algorithm and recent update techniques, with satisfactory results shown in extensive experiments.
SWARM AND EVOLUTIONARY COMPUTATION
(2021)
Article
Ecology
Jennifer Cartwright, Toni Lyn Morelli, Evan H. Campbell Grant
Summary: Vernal pools in the northeastern United States provide breeding habitat for amphibians but are sensitive to droughts and climate change. Some pools may dry up earlier in the year, potentially impacting amphibian life cycles, while others may continue to provide wetland habitat as ecohydrologic refugia. Machine-learning models were used to predict pool inundation and generate wetness predictions at different time points, weather scenarios, and climate projections, helping identify which pools may function as refugia from droughts and climate change, thus supporting amphibian conservation.
Article
Environmental Sciences
Kelly L. Smalling, Brittany A. Mosher, Luke R. Iwanowicz, Keith A. Loftin, Adam Boehlke, Michelle L. Hladik, Carly R. Muletz-Wolz, Nandadevi Cortes-Rodriguez, Robin Femmer, Evan H. Campbell Grant
Summary: This study aims to investigate the relationship between amphibian disease and chemical stressors. The results show that ranavirus is prevalent in wetlands across several protected areas in the northeastern United States, and its occurrence is strongly associated with concentrations of metalloestrogens and total metals in wetland sediments, but weakly negatively related to total pesticide concentrations in larval amphibians.
ENVIRONMENTAL TOXICOLOGY AND CHEMISTRY
(2022)
Article
Ecology
David Munoz, David Miller, Rudolf Schilder, Evan H. Campbell Grant
Summary: Predicted global temperature changes are expected to increase extinction risk for ectotherms due to increased metabolic rates. Plastic metabolic responses to seasonal thermal cues were observed in some populations, but limited plastic responses were found for future climate temperatures. Warming is likely to impact the energy budgets of salamanders, potentially affecting individual growth and reproductive investment.
ECOLOGY AND EVOLUTION
(2022)
Article
Biodiversity Conservation
Evan H. Campbell Grant, Kevin P. Mulder, Adrianne B. Brand, Douglas B. Chambers, Addison H. Wynn, Grace Capshaw, Matthew L. Niemiller, John G. Phillips, Jeremy F. Jacobs, Shawn R. Kuchta, Rayna C. Bell
Summary: Cave species are often highly endemic and can be vulnerable to habitat degradation. This study investigates the evolutionary history and population trend of Gyrinophilus subterraneus and assesses water quality threats to the cave habitat. The research reveals a rare case of sympatric speciation in the cave and possible decline in the population. Water quality measures show no evidence of impairment. The finding of a hybrid zone between G. subterraneus and G. porphyriticus highlights the need for further understanding of occasional hybridization and its conservation implications.
CONSERVATION GENETICS
(2022)
Article
Biochemistry & Molecular Biology
Kristyn A. Robinson, Sarah M. Prostak, Evan H. Campbell Grant, Lillian K. Fritz-Laylin
Summary: The frog-killing chytrid fungus Batrachochytrium dendrobatidis (Bd) is rapidly triggered into its reproductive state when exposed to amphibian mucus, a process that does not require gene expression but relies on surface adhesion, calcium signaling, and modulation of the actin cytoskeleton.
Article
Ecology
Alexander D. Wright, Evan H. Campbell Grant, Elise F. Zipkin
Summary: Dedicated long-term monitoring is crucial for understanding biodiversity losses and developing effective conservation plans. Wildlife monitoring requires data collection at different spatial scales to understand the status, trends, and drivers of species or communities. Limited resources require tradeoffs in data collection scope and scale. The stratified random design outperformed other designs for most parameters, but other designs had improved performance in specific situations.
ECOLOGICAL APPLICATIONS
(2022)
Article
Biodiversity Conservation
Brian J. Halstead, Andrew M. Ray, Erin Muths, Evan H. Campbell Grant, Rob Grasso, Michael J. Adams, Kathleen Semple Delaney, Jane Carlson, Blake R. Hossack
Summary: Protected areas, such as national parks, are crucial for conserving biodiversity and ecosystem function by limiting human influence on the landscape. The U.S. National Park Service plays a significant role in conservation by providing protected lands for researchers to study species distributions, identify causes of declines, and implement effective conservation strategies. National parks have contributed to amphibian research by providing evidence of declines and supporting successful conservation strategies.
ECOLOGICAL INDICATORS
(2022)
Article
Environmental Sciences
Jennifer F. Moore, Julien Martin, Hardin Waddle, Evan H. Campbell Grant, Jill Fleming, Eve Bohnett, Thomas S. B. Akre, Donald J. Brown, Michael T. Jones, Jessica R. Meck, Kevin Oxenrider, Anthony Tur, Lisabeth L. Willey, Fred Johnson
Summary: Population projection models are crucial for conservation and management, especially when empirical data is limited. Expert elicitation can supplement existing data and improve the accuracy of these models by considering uncertainties. However, the choice of aggregation techniques for summarizing expert elicited values can have an impact on model estimates.
JOURNAL OF ENVIRONMENTAL MANAGEMENT
(2022)
Article
Ecology
Graziella DiRenzo, David A. W. Miller, Evan H. C. Grant
Summary: The study highlights the importance of distinguishing between availability and detectability in occupancy models. When species availability is low, single-scale occupancy models underestimate occupancy and provide poor parameter coverage, while high availability leads to similar performance between single-scale and multi-scale occupancy models. The results emphasize the impact of unaccounted for availability in species distribution estimates using single-scale occupancy models.
METHODS IN ECOLOGY AND EVOLUTION
(2022)
Article
Biodiversity Conservation
Sarah R. Weiskopf, Alexey N. Shiklomanov, Laura Thompson, Sarah Wheedleton, Evan H. Campbell Grant
Summary: Climate change is an important factor driving biodiversity loss, especially for ectothermic amphibians. This study investigates the influence of winter severity on occupancy dynamics of 11 anuran species in the eastern United States using citizen science data. The results show that increased snow cover and warmer winter temperatures are associated with increased occupancy, but the impacts vary among species. The findings highlight the importance of considering multiple dimensions of climate change on amphibian populations.
DIVERSITY AND DISTRIBUTIONS
(2022)
Article
Biodiversity Conservation
John Grider, Wayne E. Thogmartin, Evan H. Campbell Grant, Riley F. Bernard, Robin E. Russell
Summary: White-nose syndrome has greatly reduced bat populations, but treatments can mitigate mortality. A model was developed to explore the effects of different treatment scenarios on bat populations. Treatment method, timing, and disturbance are important factors affecting treatment success. Applying treatments before or during the early epidemic stages is more effective.
JOURNAL OF APPLIED ECOLOGY
(2022)
Article
Zoology
Sean C. Sterrett, Todd D. Dubreuil, Matthew J. O'Donnell, Adrianne Brand, Evan H. Campbell Grant
Summary: Studying the movements of organisms that live underground is challenging, but using PIT tags can help overcome this challenge. This study found no negative effects of PIT tag implantation on the growth and survival of the Red-Backed Salamander, and electromagnetic fields associated with reading PIT tags had no impact on salamander behavior. Therefore, PIT tags remain a viable tool for studying the movement ecology of salamanders.
JOURNAL OF HERPETOLOGY
(2022)
Article
Multidisciplinary Sciences
Beth A. Reinke, Hugo Cayuela, Fredric J. Janzen, Jean-Francois Lemaitre, Jean-Michel Gaillard, A. Michelle Lawing, John B. Iverson, Ditte G. Christiansen, Inigo Martinez-Solano, Gregorio Sanchez-Montes, Jorge Gutierrez-Rodriguez, Francis L. Rose, Nicola Nelson, Susan Keall, Alain J. Crivelli, Theodoros Nazirides, Annegret Grimm-Seyfarth, Klaus Henle, Emiliano Mori, Gaetan Guiller, Rebecca Homan, Anthony Olivier, Erin Muths, Blake R. Hossack, Xavier Bonnet, David S. Pilliod, Marieke Lettink, Tony Whitaker, Benedikt R. Schmidt, Michael G. Gardner, Marc Cheylan, Francoise Poitevin, Ana Golubovic, Ljiljana Tomovic, Dragan Arsovski, Richard A. Griffiths, Jan W. Arntzen, Jean-Pierre Baron, Jean-Francois Le Galliard, Thomas Tully, Luca Luiselli, Massimo Capula, Lorenzo Rugiero, Rebecca McCaffery, Lisa A. Eby, Venetia Briggs-Gonzalez, Frank Mazzotti, David Pearson, Brad A. Lambert, David M. Green, Nathalie Jreidini, Claudio Angelini, Graham Pyke, Jean-Marc Thirion, Pierre Joly, Jean-Paul Lena, Anton D. Tucker, Col Limpus, Pauline Priol, Aurelien Besnard, Pauline Bernard, Kristin Stanford, Richard King, Justin Garwood, Jaime Bosch, Franco L. Souza, Jaime Bertoluci, Shirley Famelli, Kurt Grossenbacher, Omar Lenzi, Kathleen Matthews, Sylvain Boitaud, Deanna H. Olson, Tim S. Jessop, Graeme R. Gillespie, Jean Clobert, Murielle Richard, Andres Valenzuela-Sanchez, Gary M. Fellers, Patrick M. Kleeman, Brian J. Halstead, Evan H. Campbell Grant, Phillip G. Byrne, Thierry Fretey, Bernard Le Garff, Pauline Levionnois, John C. Maerz, Julian Pichenot, Kurtulus Olgun, Nazan Uzum, Aziz Avci, Claude Miaud, Johan Elmberg, Gregory P. Brown, Richard Shine, Nathan F. Bendik, Lisa O'Donnell, Courtney L. Davis, Michael J. Lannoo, Rochelle M. Stiles, Robert M. Cox, Aaron M. Reedy, Daniel A. Warner, Eric Bonnaire, Kristine Grayson, Roberto Ramos-Targarona, Eyup Baskale, David Munoz, John Measey, F. Andre de Villiers, Will Selman, Victor Ronget, Anne M. Bronikowski, David A. W. Miller
Summary: This study investigates the aging rates and longevity of wild ectothermic tetrapods, showing that they exhibit higher diversity of aging rates compared to endotherms and provide evidence of negligible aging. Protective phenotypes and life-history strategies explain the macroevolutionary patterns of aging.
Article
Zoology
Jill Fleming, Jennifer F. Moore, Hardin Waddle, Julien Martin, Evan H. Campbell Grant
Summary: Northern Red-Bellied Cooters have a disjunct distribution with a relictual population in southeastern Massachusetts and a larger range across the mid-Atlantic United States. The relictual population is currently protected, but the status of the population in the rest of its range is unknown. To address data gaps, researchers used data from other related species to model the population and found that it may be declining, although there is uncertainty in the results.
JOURNAL OF HERPETOLOGY
(2022)
Article
Biodiversity Conservation
Jonathan D. Cook, Evan H. Campbell Grant, Jeremy T. H. Coleman, Jonathan M. Sleeman, Michael C. Runge
Summary: This article discusses the use of decision analysis in studying and managing wildlife disease outbreaks and the importance of risk assessment. By combining expert judgment and rapid dissemination of scientific information, timely decision support can be provided for wildlife conservation.
WILDLIFE SOCIETY BULLETIN
(2022)