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Creators/Authors contains: "Song, Yang"

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  1. Abstract This paper explores the evolution of Geodesign in addressing spatial and environmental challenges from its early foundations to the recent integration of artificial intelligence (AI). AI enhances existing Geodesign methods by automating spatial data analysis, improving land use classification, refining heat island effect assessment, optimizing energy use, facilitating green infrastructure planning, and generating design scenarios. Despite the transformative potential of AI in Geodesign, challenges related to data quality, model interpretability, and ethical concerns such as privacy and bias persist. This paper highlights case studies that demonstrate the application of AI in Geodesign, offering insights into its role in understanding existing systems and designing future changes. The paper concludes by advocating for the responsible and transparent integration of AI to ensure equitable and effective Geodesign outcomes. 
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  2. Free, publicly-accessible full text available November 4, 2025
  3. This paper presents a comprehensive approach to predicting short-term (for the upcoming 2 weeks) changes in estuarine dissolved oxygen concentrations via machine learning models that integrate historical water sampling, historical and upcoming 2-week meteorological data, and river discharge and discharge metrics. Dissolved oxygen is a critical indicator of ecosystem health, and this approach is implemented for the Neuse River Estuary, North Carolina, U.S.A., which has a long history of hypoxia-related habitat degradation. Through meticulous data preprocessing and feature selection, this research evaluates the predictions of dissolved oxygen concentrations by comparing a recurrent neural network with four other models, including a Multilayer Perceptron, Long Short-Term Memory, Gradient Boosting, and AutoKeras, through sensitivity experiments. The input predictors to our prediction models include water temperature, turbidity, chlorophyll-a, aggregated river discharge, and aggregated wind based on eight directions. By emphasizing the most impactful predictors, we streamlined the model-building processes and built a hindcast system from 2015 to 2019. We found that the recurrent neural network model was most effective in predicting the dissolved oxygen concentrations, with an R2 value of 0.99 at multiple stations. Different from our machine learning hindcast models that used observed upcoming meteorological and discharge data, an actual forecast system would use forecasted meteorological and discharge data. Therefore, an actual operational forecast may have lower accuracy than the hindcast, as determined by the accuracy of the predicted meteorological and discharge data. Nevertheless, our studies enhance our understanding of the factors influencing dissolved oxygen variability and set the basis for the implementation of a predictive tool for environmental monitoring and management. We also emphasized the importance of building station-specific models to improve the prediction results. 
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  4. Free, publicly-accessible full text available January 25, 2026
  5. Cu is an antimicrobial that is commonly applied to premise (i.e., building) plumbing systems for Legionella control, but the precise mechanisms of inactivation are not well defined. Here, we applied a suite of viability assays and mass spectrometry-based proteomics to assess the mechanistic effects of Cu on L. pneumophila. Although a five- to six-log reduction in culturability was observed with 5 mg/L Cu2+ exposure, cell membrane integrity only indicated a <50% reduction. Whole-cell proteomic analysis revealed that AhpD, a protein related to oxidative stress, was elevated in Cu-exposed Legionella relative to culturable cells. Other proteins related to cell membrane synthesis and motility were also higher for the Cu-exposed cells relative to controls without Cu. While the proteins related to primary metabolism decreased for the Cu-exposed cells, no significant differences in the abundance of proteins related to virulence or infectivity were found, which was consistent with the ability of VBNC cells to cause infections. Whereas the cell-membrane integrity assay provided an upper-bound measurement of viability, an amoebae co-culture assay provided a lower-bound limit. The findings have important implications for assessing Legionella risk following its exposure to copper in engineered water systems. 
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  6. This study explores the integration of text-to-image generative AI, particularly Stable Diffusion, in conjunction with ControlNet and LoRA models in conceptual landscape design. Traditional methods in landscape design are often time-consuming and limited by the designer’s individual creativity, also often lacking efficiency in the exploration of diverse design solutions. By leveraging AI tools, we demonstrate a workflow that efficiently generates detailed and visually coherent landscape designs, including natural parks, city plazas, and courtyard gardens. Through both qualitative and quantitative evaluations, our results indicate that fine-tuned models produce superior designs compared to non-fine-tuned models, maintaining spatial consistency, control over scale, and relevant landscape elements. This research advances the efficiency of conceptual design processes and underscores the potential of AI in enhancing creativity and innovation in landscape architecture. 
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  7. The accurate forecast of algal blooms can provide helpful information for water resource management. However, the complex relationship between environmental variables and blooms makes the forecast challenging. In this study, we build a pipeline incorporating four commonly used machine learning models, Support Vector Regression (SVR), Random Forest Regression (RFR), Wavelet Analysis (WA)-Back Propagation Neural Network (BPNN) and WA-Long Short-Term Memory (LSTM), to predict chlorophyll-a in coastal waters. Two areas with distinct environmental features, the Neuse River Estuary, NC, USA—where machine learning models are applied for short-term algal bloom forecast at single stations for the first time—and the Scripps Pier, CA, USA, are selected. Applying the pipeline, we can easily switch from the NRE forecast to the Scripps Pier forecast with minimum model tuning. The pipeline successfully predicts the occurrence of algal blooms in both regions, with more robustness using WA-LSTM and WA-BPNN than SVR and RFR. The pipeline allows us to find the best results by trying different numbers of neuron hidden layers. The pipeline is easily adaptable to other coastal areas. Experience with the two study regions demonstrated that enrichment of the dataset by including dominant physical processes is necessary to improve chlorophyll prediction when applying it to other aquatic systems. 
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  8. We investigate how matrix stiffness regulates chromatin reorganization and cell reprogramming and find that matrix stiffness acts as a biphasic regulator of epigenetic state and fibroblast-to-neuron conversion efficiency, maximized at an intermediate stiffness of 20 kPa. ATAC sequencing analysis shows the same trend of chromatin accessibility to neuronal genes at these stiffness levels. Concurrently, we observe peak levels of histone acetylation and histone acetyltransferase (HAT) activity in the nucleus on 20 kPa matrices, and inhibiting HAT activity abolishes matrix stiffness effects. G-actin and cofilin, the cotransporters shuttling HAT into the nucleus, rises with decreasing matrix stiffness; however, reduced importin-9 on soft matrices limits nuclear transport. These two factors result in a biphasic regulation of HAT transport into nucleus, which is directly demonstrated on matrices with dynamically tunable stiffness. Our findings unravel a mechanism of the mechano-epigenetic regulation that is valuable for cell engineering in disease modeling and regenerative medicine applications. 
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