Toward a dynamic national transportation noise map: Modeling temporal variability of spectral traffic noise emission levels.

The National Transportation Noise Map predicts time-averaged road traffic noise across the continental United States (CONUS) based on annual average daily traffic counts. However, traffic noise can vary greatly with time. This paper outlines a method for predicting nationwide hourly varying source traffic sound emissions called the Vehicular Reduced-Order Observation-based Model (VROOM). The method incorporates three models that predict temporal variability of traffic volume, predict temporal variability of different traffic classes, and use Traffic Noise Model (TNM) 3.0 equations to give traffic noise emission levels based on vehicle numbers and class mix. Location-specific features are used to predict average class mix across CONUS. VROOM then incorporates dynamic traffic class mix data to obtain dynamic traffic class mix. TNM 3.0 equations then give estimated equivalent sound level emission spectra near roads with up to hourly resolution. Important temporal traffic noise characteristics are modeled, including diurnal traffic patterns, rush hours in urban locations, and weekly and yearly variation. Examples of the temporal variability are depicted and possible types of uncertainties are identified. Altogether, VROOM can be used to map national transportation noise with temporal and spectral variability.

Quantitative and Kinetic Proteomics Reveal ApoE Isoform-dependent Proteostasis Adaptations in Mouse Brain.

Apolipoprotein E (ApoE) polymorphisms modify the risk of neurodegenerative disease with the ApoE4 isoform increasing and ApoE2 isoform decreasing risk relative to the 'wild-type control' ApoE3 isoform. To elucidate how ApoE isoforms alter the proteome, we measured relative protein abundance and turnover in transgenic mice expressing a human ApoE gene (isoform 2, 3, or 4). This data provides insight into how ApoE isoforms affect the in vivo synthesis and degradation of a wide variety of proteins. We identified 4849 proteins and tested for ApoE isoform-dependent changes in the homeostatic regulation of ~2700 ontologies. In the brain, we found that ApoE4 and ApoE2 both lead to modified regulation of mitochondrial membrane proteins relative to the wild-type control ApoE3. In ApoE4 mice, this regulation is not cohesive suggesting that aerobic respiration is impacted by proteasomal and autophagic dysregulation. ApoE2 mice exhibited a matching change in mitochondrial matrix proteins and the membrane which suggests coordinated maintenance of the entire organelle. In the liver, we did not observe these changes suggesting that the ApoE-effect on proteostasis is amplified in the brain relative to other tissues. Our findings underscore the utility of combining protein abundance and turnover rates to decipher proteome regulatory mechanisms and their potential role in biology.

Information geometry analysis example for absolute and relative transmission loss in a shallow ocean.

The model manifold, an information geometry tool, is a geometric representation of a model that can quantify the expected information content of modeling parameters. For a normal-mode sound propagation model in a shallow ocean environment, transmission loss (TL) is calculated for a vertical line array and model manifolds are constructed for both absolute and relative TL. For the example presented in this paper, relative TL yields more compact model manifolds with seabed environments that are less statistically distinguishable than manifolds of absolute TL. This example illustrates how model manifolds can be used to improve experimental design for inverse problems.

The training process of many deep networks explores the same low-dimensional manifold.

We develop information-geometric techniques to analyze the trajectories of the predictions of deep networks during training. By examining the underlying high-dimensional probabilistic models, we reveal that the training process explores an effectively low-dimensional manifold. Networks with a wide range of architectures, sizes, trained using different optimization methods, regularization techniques, data augmentation techniques, and weight initializations lie on the same manifold in the prediction space. We study the details of this manifold to find that networks with different architectures follow distinguishable trajectories, but other factors have a minimal influence; larger networks train along a similar manifold as that of smaller networks, just faster; and networks initialized at very different parts of the prediction space converge to the solution along a similar manifold.

Data-driven decomposition of crowd noise from indoor sporting events.

Separating crowd responses from raw acoustic signals at sporting events is challenging because recordings contain complex combinations of acoustic sources, including crowd noise, music, individual voices, and public address (PA) systems. This paper presents a data-driven decomposition of recordings of 30 collegiate sporting events. The decomposition uses machine-learning methods to find three principal spectral shapes that separate various acoustic sources. First, the distributions of recorded one-half-second equivalent continuous sound levels from men's and women's basketball and volleyball games are analyzed with regard to crowd size and venue. Using 24 one-third-octave bands between 50 Hz and 10 kHz, spectrograms from each type of game are then analyzed. Based on principal component analysis, 87.5% of the spectral variation in the signals can be represented with three principal components, regardless of sport, venue, or crowd composition. Using the resulting three-dimensional component coefficient representation, a Gaussian mixture model clustering analysis finds nine different clusters. These clusters separate audibly distinct signals and represent various combinations of acoustic sources, including crowd noise, music, individual voices, and the PA system.

Toward a dynamic national transportation noise map: Modeling temporal variability of traffic volume.

The National Transportation Noise Map (NTNM) gives time-averaged traffic noise across the continental United States (CONUS) using annual average daily traffic. However, traffic noise varies significantly with time. This paper outlines the development and utility of a traffic volume model which is part of VROOM, the Vehicular Reduced-Order Observation-based model, which, using hourly traffic volume data from thousands of traffic monitoring stations across CONUS, predicts nationwide hourly varying traffic source noise. Fourier analysis finds daily, weekly, and yearly temporal traffic volume cycles at individual traffic monitoring stations. Then, principal component analysis uses denoised Fourier spectra to find the most widespread cyclic traffic patterns. VROOM uses nine principal components to represent hourly traffic characteristics for any location, encapsulating daily, weekly, and yearly variation. The principal component coefficients are predicted across CONUS using location-specific features. Expected traffic volume model sound level errors-obtained by comparing predicted traffic counts to measured traffic counts-and expected NTNM-like errors, are presented. VROOM errors are typically within a couple of decibels, whereas NTNM-like errors are often inaccurate, even exceeding 10 decibels. This work details the first steps towards creation of a temporally and spectrally variable national transportation noise map.

Feature selection for a continental-scale geospatial model of environmental sound levels.

Modeling environmental sound levels over continental scales is difficult due to the variety of geospatial environments. Moreover, current continental-scale models depend upon machine learning and therefore face additional challenges due to limited acoustic training data. In previous work, an ensemble of machine learning models was used to predict environmental sound levels in the contiguous United States using a training set composed of 51 geospatial layers (downselected from 120) and acoustic data from 496 geographic sites from Pedersen, Transtrum, Gee, Lympany, James, and Salton [JASA Express Lett. 1(12), 122401 (2021)]. In this paper, the downselection process, which is based on factors such as data quality and inter-feature correlations, is described in further detail. To investigate additional dimensionality reduction, four different feature selection methods are applied to the 51 layers. Leave-one-out median absolute deviation cross-validation errors suggest that the number of geospatial features can be reduced to 15 without significant degradation of the model's predictive error. However, ensemble predictions demonstrate that feature selection results are sensitive to variations in details of the problem formulation and, therefore, should elicit some skepticism. These results suggest that more sophisticated dimensionality reduction techniques are necessary for problems with limited training data and different training and testing distributions.

Sloppy model analysis identifies bifurcation parameters without normal form analysis.

Bifurcation phenomena are common in multidimensional multiparameter dynamical systems. Normal form theory suggests that bifurcations are driven by relatively few combinations of parameters. Models of complex systems, however, rarely appear in normal form, and bifurcations are controlled by nonlinear combinations of the bare parameters of differential equations. Discovering reparameterizations to transform complex equations into a normal form is often very difficult, and the reparameterization may not even exist in a closed form. Here we show that information geometry and sloppy model analysis using the Fisher information matrix can be used to identify the combination of parameters that control bifurcations. By considering observations on increasingly long timescales, we find those parameters that rapidly characterize the system's topological inhomogeneities, whether the system is in normal form or not. We anticipate that this novel analytical method, which we call time-widening information geometry (TWIG), will be useful in applied network analysis.

Information geometry for multiparameter models: new perspectives on the origin of simplicity.

Complex models in physics, biology, economics, and engineering are oftensloppy, meaning that the model parameters are not well determined by the model predictions for collective behavior. Many parameter combinations can vary over decades without significant changes in the predictions. This review uses information geometry to explore sloppiness and its deep relation to emergent theories. We introduce themodel manifoldof predictions, whose coordinates are the model parameters. Itshyperribbonstructure explains why only a few parameter combinations matter for the behavior. We review recent rigorous results that connect the hierarchy of hyperribbon widths to approximation theory, and to the smoothness of model predictions under changes of the control variables. We discuss recent geodesic methods to find simpler models on nearby boundaries of the model manifold-emergent theories with fewer parameters that explain the behavior equally well. We discuss a Bayesian prior which optimizes the mutual information between model parameters and experimental data, naturally favoring points on the emergent boundary theories and thus simpler models. We introduce a 'projected maximum likelihood' prior that efficiently approximates this optimal prior, and contrast both to the poor behavior of the traditional Jeffreys prior. We discuss the way the renormalization group coarse-graining in statistical mechanics introduces a flow of the model manifold, and connect stiff and sloppy directions along the model manifold with relevant and irrelevant eigendirections of the renormalization group. Finally, we discuss recently developed 'intensive' embedding methods, allowing one to visualize the predictions of arbitrary probabilistic models as low-dimensional projections of an isometric embedding, and illustrate our method by generating the model manifold of the Ising model.

Utilizing Nonequilibrium Isotope Enrichments to Dramatically Increase Turnover Measurement Ranges in Single Biopsy Samples from Humans.

The synthesis of new proteins and the degradation of old proteins in vivo can be quantified in serial samples using metabolic isotope labeling to measure turnover. Because serial biopsies in humans are impractical, we set out to develop a method to calculate the turnover rates of proteins from single human biopsies. This method involved a new metabolic labeling approach and adjustments to the calculations used in previous work to calculate protein turnover. We demonstrate that using a nonequilibrium isotope enrichment strategy avoids the time dependent bias caused by variable lag in label delivery to different tissues observed in traditional metabolic labeling methods. Turnover rates are consistent for the same subject in biopsies from different labeling periods, and turnover rates calculated in this study are consistent with previously reported values. We also demonstrate that by measuring protein turnover we can determine where proteins are synthesized. In human subjects a significant difference in turnover rates differentiated proteins synthesized in the salivary glands versus those imported from the serum. We also provide a data analysis tool, DeuteRater-H, to calculate protein turnover using this nonequilibrium metabolic 2H2O method.