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At least 379 records · Page 21

Establishing metrics to quantify spatial similarity in spherical and red blood cell distributions

As computational power increases and systems with millions of red blood cells can be simulated, it is important to note that varying spatial distributions of cells may affect simulation outcomes. Since a single simulation may not represent the ensemble behavior, many different configurations may need to be sampled to adequately assess the entire collection of potential cell arrangements. In order to determine both the number of distributions needed and which ones to run, we must first establish methods to identify well-generated, randomly placed cell distributions and to quantify distinct cell configurations. We utilize metrics to assess (1) the presence of any underlying structure to the initial cell distribution and (2) similarity between cell configurations. We propose the use of the radial distribution function to identify long-range structure in a cell configuration and apply it to a randomly distributed and structured set of red blood cells. To quantify spatial similarity between two configurations, we make use of the Jaccard index, and characterize sets of red blood cell and sphere initializations. As an extension to our work submitted to the International Conference on Computational Science, we significantly increase our data set size from 72 to 1048 cells, include a similar set of studies using spheres, compare the effects of varying sphere size, and utilize the Jaccard index distribution to probe sets of extremely similar configurations. Our results show that the radial distribution function can be used as a metric to determine long-range structure in both distributions of spheres and RBCs. We determine that the ideal case of spheres within a cube versus bi-concave shaped cells within a cylinder affects the shape of the Jaccard index distributions, as well as the range of Jaccard values, showing that both the shape of particle and the domain may play a role. Furthermore, we also find that the distribution is able to capture very similar configurations through Jaccard index values greater than 95% when appending several nearly identical configurations into the data set.

59 BASIC BIOLOGICAL SCIENCES↗

The Mira–Titan Universe – IV. High-precision power spectrum emulation

Modern cosmological surveys are delivering data sets characterized by unprecedented quality and statistical completeness; this trend is expected to continue in the future as new ground- and space-based surveys come online. In order to maximally extract cosmological information from these observations, matching theoretical predictions are needed. At low redshifts, the surveys probe the non-linear regime of structure formation where cosmological simulations are the primary means of obtaining the required information. The computational cost of sufficiently resolved large-volume simulations makes it prohibitive to run very large ensembles. Nevertheless, precision emulators built on a tractable number of high-quality simulations can be used to build very fast prediction schemes to enable a variety of cosmological inference studies. We have recently introduced the Mira–Titan Universe simulation suite designed to construct emulators for a range of cosmological probes. This gravity-only set of simulations covers the standard six cosmological parameters {ω m , ω b , σ 8 , $h, n_s, w_0$} and, in addition, includes massive neutrinos and a dynamical dark energy equation of state {ω ν , $w_a$}. In this paper, we present the final emulator for the matter power spectrum based on 111 cosmological simulations, each covering a (2.1 Gpc) 3 volume and evolving 3200 3 particles. In this work, an additional set of 1776 lower resolution simulations and TimeRG perturbation theory results for the power spectrum are used to cover scales straddling the linear to mildly non-linear regimes (maximum wavenumber $\textit{k}$ = 5 Mpc –1 ). The emulator provides predictions at the 2–3 percent level of accuracy over a wide range of cosmological parameters and is publicly released as part of this paper.

79 ASTRONOMY AND ASTROPHYSICS↗

KRAS4a and KRAS4b show distinct lipid-dependent regulation of RAS-RAF membrane dynamics

KRAS4a and KRAS4b are important regulators of signaling, and their interactions with the plasma membrane are dynamic and influenced by lipid composition. KRAS 4a and 4b have nearly identical globular domains but differ in their membrane-associated hyper variable region (HVR). The functional distinctions between these isoforms remain unclear, particularly with regards to their dependence on specific lipids and the membrane environment. Previous work showed that the membrane orientation of KRAS4b affects its ability to bind to RAF kinase RBDCRD and that the KRAS–RBDCRD complex adopts different poses on the membrane as well as influences the size and composition of the lipid environment. To model differences between KRAS 4a and 4b protein–lipid interactions, we extended the Multiscale Machine-Learned Modeling Infrastructure (MuMMI) to incorporate continuum simulations in the grand canonical ensemble, enabling sampling across macroscopic, coarse-grained, and all-atom resolutions. Using this framework, we systematically altered PIP2 concentrations, KRAS 4a versus 4b, and RAF RBDCRD complexation to assess impacts on membrane–protein interactions and dynamics. Our results reveal that reducing PIP2 shifts and broadens the membrane orientational preference of both KRAS 4b and 4a, with stronger effects on 4b HVR localization versus 4a. We demonstrate that with depletion of the strong negatively charged PIP2 lipid, the less charged phosphatidylserine replaces PIP2. Our findings highlight similarities and distinctions in the dynamics and lipid dependency of KRAS isoforms and suggest that ordering of the local lipid composition by HVRs is a shared property and key modulator of RAS-mediated signaling at the plasma membrane.

Biological and medical sciences↗

A Quantum-Based Approach to Predict Primary Radiation Damage in Polymeric Networks

Initial atomistic-level radiation damage in chemically reactive materials is thought to induce reaction cascades that can result in undesirable degradation of macroscale properties. Ensembles of quantum-based molecular dynamics (QMD) simulations can accurately predict these cascades, but extracting chemical insights from the many underlying trajectories is a labor-intensive process that can require substantial a priori intuition. We develop here a general and automated graph-based approach to extract all chemically distinct structures sampled in QMD simulations and apply our approach to predict primary radiation damage of polydimethylsiloxane (PDMS), the main constituent of silicones. A postprocessing protocol is developed to identify underlying polymer backbone structures as connected components in QMD trajectories. Furthermore, these backbones form a repository of radiation-damaged structures. A scheme for extracting and updating a library of isomorphically distinct structures is proposed to identify the spanning set and aid chemical interpretation of the repository. The analyses are applied to ensembles of cascade QMD simulations in which the four element types in PDMS are selectively excited in primary knock-on atom events. Our approach reveals a much higher degree of combinatorial complexity in this system than was inferred through radiolysis experiments. Probabilities are extracted for radiation-induced network changes including formation of branch points, carbon linkages, cycles, bond scissions, and carbon uptake into the Si–O siloxane backbone network. The general analysis framework presented here is readily extendable to modeling chemical degradation of other polymers and molecular materials and provides a basis for future quantum-informed multiscale modeling of radiation damage.

36 MATERIALS SCIENCE↗

Forced Patterns of Sea Level Rise in the Community Earth System Model Large Ensemble From 1920 to 2100

To provide context for observed sea level rise, the forced response (FR) in dynamic sea level (DSL) during the 20th and 21st centuries is examined in the Community Earth System Model Large Ensemble (LE). After accounting for simulation drift, which in the LE is sizable, the DSL FR is found to be complex, both in space and time. Its evolving character is suggested to arise from both the diversity and transient evolution of climate forcing agents and the slow adjustment timescales of the intermediate and deep oceans. Nonetheless, various intervals of spatially coherent change simulated for the recent past and near future are identified, and their characteristics and associated driving mechanisms are identified and discussed. The mid- to late-20th century DSL FR is characterized by an hemispherically asymmetric pattern of change, with depressed rates of rise in the northern oceans. There is also a dipole of change in the Southern Ocean caused by changes in near-surface zonal winds. Through the late 20th and early 21st centuries, a different pattern of rise emerges with elevated rates in the tropics and depressed rates at high latitudes. Zonal and interbasin variations characterize both intervals and involve the pattern and depth of anomalous ocean heat content storage and spatial contrasts in the expansion coefficient tied mainly to base state temperature, with greater rates of rise in warm regions per unit warming. Finally, the relative roles of surface flux and ocean convergence anomalies are examined.

54 ENVIRONMENTAL SCIENCES↗

Intrinsic Century-Scale Variability in Tropical Pacific Sea Surface Temperatures and Their Influence on Western US Hydroclimate

Hydroclimate variability of the southwest United States (SWUS) is influenced by the tropical Pacific Ocean, particularly through the teleconnection to El Nino/Southern Oscillation (ENSO), which is expected to be altered by climate change. Natural variability in this teleconnection has not been robustly quantified, complicating the detection of anthropogenic climate change. Here, we use a linear inverse model (LIM) to quantify natural variability in the ENSO-SWUS teleconnection. The LIM yields realistic teleconnection patterns with century-scale variability comparable to simulations from the Last Millennium Ensemble project and the Climate Model Intercomparison Project Phases 5 and 6. The variability quantified by the LIM illuminates two aspects of our understanding of ENSO and its impacts: the inherent statistics of the observable system can produce century-long periods with a wide range of correlations to SWUS hydroclimate, including nonsignificant correlations, and thus that detecting changes in ENSO-related hydroclimate variability is challenging in a changing climate.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗

The Potential of Stratospheric Aerosol Injection to Reduce the Climatic Risks of Explosive Volcanic Eruptions

Sulfur-rich volcanic eruptions happen sporadically. If Stratospheric Aerosol Injection (SAI) were to be deployed, it is likely that explosive volcanic eruptions would happen during such a deployment. Here we use an ensemble of Earth System Model simulations to show how changing the injection strategy post-eruption could be used to reduce the climate risks of a large volcanic eruption; the risks are also modified even without any change to the strategy. For a medium-size eruption (10 Tg-SO 2 ) comparable to the SAI injection rate, the volcanic-induced cooling would be reduced if it occurs under SAI, especially if artificial sulfur dioxide injections were immediately suspended. Alternatively, suspending injection only in the eruption hemisphere and continuing injection in the opposite would reduce shifts in precipitation in the tropical belt and thus mitigate eruption-induced drought. Finally, we show that for eruptions much larger than the SAI deployment, changes in SAI strategy would have minimal effect.

54 ENVIRONMENTAL SCIENCES↗

Inverse Mapping of the Collision Kernel and Wall Flux Scaling in a Tall Convection‐Cloud Chamber Using Local Sensors and Knowledge‐Informed Deep Learning

Droplet collision–coalescence is a crucial process in cloud physics, but accurately representing this process under different dynamical conditions remains challenging. A proposed future convective‐cloud chamber aims to investigate this key process, but the method for observing it remains unclear, even though it is theoretically established that collision‐coalescence will occur. This study serves as a proof‐of‐concept demonstration of how knowledge‐informed deep learning, combined with measurement data from local sensors in the chamber, can be used to estimate the collision kernels, which determine how the droplet size distribution evolves during collision‐coalescence. In addition to estimating the collision kernel, we also address wall fluxes, another uncertain but important process that acts as a source of heat and moisture in the chamber. Ensemble runs of large‐eddy simulations are conducted by scaling the wall fluxes and the collision kernel, while the measured flow and cloud properties are used as inputs for a neural network. Results indicate that this approach successfully maps the scaling of wall fluxes and the collision kernel with biases of approximately 1% or less relative to the range of the target data. This proof‐of‐concept lays the groundwork for future applications; when the real measurements are available, real sensor data combined with the trained model presented in this work will enable estimation of the actual wall fluxes and collision kernel.

cloud chamber↗

Ocean cavity regime shift reversed West Antarctic grounding line retreat in the late Holocene

Recent geologic and modeled evidence suggests that the grounding line of the Siple Coast of the West Antarctic Ice Sheet (WAIS) retreated hundreds of kilometers beyond its present position in the middle to late Holocene and readvanced within the past 1.7 ka. This grounding line reversal has been attributed to both changing rates of isostatic rebound and regional climate change. Here, we test these two hypotheses using a proxy-informed ensemble of ice sheet model simulations with varying ocean thermal forcing, global glacioisostatic adjustment (GIA) model simulations, and coupled ice sheet-GIA simulations that consider the interactions between these processes. Our results indicate that a warm to cold ocean cavity regime shift is the most likely cause of this grounding line reversal, but that GIA influences the rate of ice sheet response to oceanic changes. This implies that the grounding line here is sensitive to future changes in sub-ice shelf ocean circulation.

58 GEOSCIENCES↗

Human influence on joint changes in temperature, rainfall and continental aridity

Despite the pervasive impact of drought on human and natural systems, the large-scale mechanisms conducive to regional drying remain poorly understood. Here we use a multivariate approach to identify two distinct externally forced fingerprints from multiple ensembles of Earth system model simulations. The leading fingerprint, F M1 (x), is characterized by global warming, intensified wet–dry patterns and progressive large-scale continental aridification, largely driven by multidecadal increases in greenhouse gas (GHG) emissions. The second fingerprint, F M2 (x), captures a pronounced interhemispheric temperature contrast, associated meridional shifts in the intertropical convergence zone and correlated anomalies in precipitation and aridity over California, the Sahel and India. F M2 (x) exhibits nonlinear temporal behaviour: the intertropical convergence zone moves southwards before 1975 in response to increases in hemispherically asymmetric sulfate aerosol emissions, and it shifts northwards after 1975 due to reduced sulfur dioxide emissions and the GHG-induced warming of Northern Hemisphere landmasses. Both fingerprints are statistically identifiable in observations of joint changes in temperature, rainfall and aridity during 1950–2014. Furthermore, we show that the reliable simulation of these changes requires combined forcing by GHGs, direct and indirect effects of aerosols, and large volcanic eruptions. Our results suggest that GHG-induced aridification may be modulated regionally by future reductions in sulfate aerosol emissions.

54 ENVIRONMENTAL SCIENCES↗

The structural plasticity of nucleic acid duplexes revealed by WAXS and MD

Double-stranded DNA (dsDNA) and RNA (dsRNA) helices display an unusual structural diversity. Some structural variations are linked to sequence and may serve as signaling units for protein-binding partners. Therefore, elucidating the mechanisms and factors that modulate these variations is of fundamental importance. While the structural diversity of dsDNA has been extensively studied, similar studies have not been performed for dsRNA. Because of the increasing awareness of RNA’s diverse biological roles, such studies are timely and increasingly important. We integrate solution x-ray scattering at wide angles (WAXS) with all-atom molecular dynamics simulations to explore the conformational ensemble of duplex topologies for different sequences and salt conditions. These tightly coordinated studies identify robust correlations between features in the WAXS profiles and duplex geometry and enable atomic-level insights into the structural diversity of DNA and RNA duplexes. Notably, dsRNA displays a marked sensitivity to the valence and identity of its associated cations.

99 GENERAL AND MISCELLANEOUS↗

MSU Disentanglement Analysis Software

This software is used to disentangle the forced-versus-unforced components of tropospheric temperature change over the satellite era (after 1979) using maps of surface temperature change as a predictor. In general, the software assembles training datasets (from pre-computed surface temperature trend maps and domain averaged tropospheric warming rates), trains statistical/machine learning (ML) algorithms, applies the trained statistical/ML model to climate model data and observations, and then saves the results. A leave-one-out approach is used in which the statistical/ML models are iteratively trained on (N- 1) climate model and then applied to the remaining climate model (and observations). Each model includes a large ensemble (i.e., >10) of model simulations. The software relies on scikit-learn ridge regression, PLS regression, and neural network algorithms.

Po-Chedley, StephenD↗

Separating the Influences of Low-Latitude Warming and Sea Ice Loss on Northern Hemisphere Climate Change

Abstract Analyzing a multimodel ensemble of coupled climate model simulations forced with Arctic sea ice loss using a two-parameter pattern-scaling technique to remove the cross-coupling between low- and high-latitude responses, the sensitivity to high-latitude sea ice loss is isolated and contrasted to the sensitivity to low-latitude warming. Despite some differences in experimental design, the Northern Hemisphere near-surface atmospheric sensitivity to sea ice loss is found to be robust across models in the cold season; however, a larger intermodel spread is found at the surface in boreal summer, and in the free tropospheric circulation. In contrast, the sensitivity to low-latitude warming is most robust in the free troposphere and in the warm season, with more intermodel spread in the surface ocean and surface heat flux over the Northern Hemisphere. The robust signals associated with sea ice loss include upward turbulent and longwave heat fluxes where sea ice is lost, warming and freshening of the Arctic Ocean, warming of the eastern North Pacific Ocean relative to the western North Pacific with upward turbulent heat fluxes in the Kuroshio Extension, and salinification of the shallow shelf seas of the Arctic Ocean alongside freshening in the subpolar North Atlantic Ocean. In contrast, the robust signals associated with low-latitude warming include intensified ocean warming and upward latent heat fluxes near the western boundary currents, freshening of the Pacific Ocean, salinification of the North Atlantic, and downward sensible and longwave fluxes over the ocean.

54 ENVIRONMENTAL SCIENCES↗

The Arctic LDRD project: What happened?

This presentation overviews results from the 2019 LDRD Reserve project “Diagnosing near-future changes in Arctic sea ice and ocean conditions” and a follow-up 2020 CSES Rapid Response project “Multi- Model Risk Assessment for Arctic Navigability.” We analyzed Arctic simulations from 4 CMIP6 model ensembles (E3SM, CESM-CAM, CESM-WACCM and CESM-DPLE), comparing them with observations. We then applied a machine-learning approach using copulas to produce joint probabilities of adverse conditions along potential shipping transit routes through the Arctic. Here we compare and contrast the different models and examine the utility of the copula approach applied to these data sets.

58 GEOSCIENCES↗

The Great Inequality and the Dynamical Disintegration of the Outer Solar System

Using an ensemble of N-body simulations, this paper considers the fate of the outer gas giants (Jupiter, Saturn, Uranus, and Neptune) after the Sun leaves the main sequence and completes its stellar evolution. Due to solar mass loss—which is expected to remove roughly half of the star’s mass—the orbits of the giant planets expand. This adiabatic process maintains the orbital period ratios, but the mutual interactions between planets and the width of mean-motion resonances (MMR) increase, leading to the capture of Jupiter and Saturn into a stable 5:2 resonant configuration. The expanded orbits, coupled with the large-amplitude librations of the critical MMR angle, make the system more susceptible to perturbations from stellar flyby interactions. Accordingly, within about 30 Gyr, stellar encounters perturb the planets onto the chaotic subdomain of the 5:2 resonance, triggering a large-scale instability, which culminates in the ejections of all but one planet over the subsequent ∼10 Gyr. After an additional ∼50 Gyr, a close stellar encounter (with a perihelion distance less than ∼200 au) liberates the final planet. Through this sequence of events, the characteristic timescale over which the solar system will be completely dissolved is roughly 100 Gyr. Our analysis thus indicates that the expected dynamical lifetime of the solar system is much longer than the current age of the universe, but is significantly shorter than previous estimates.

79 ASTRONOMY AND ASTROPHYSICS↗

Quantifying albedo susceptibility biases in shallow clouds

The evaluation of radiative forcing associated with aerosol–cloud interactions remains a significant source of uncertainty in future climate projections. The problem is confounded by the fact that aerosol particles influence clouds locally and that averaging to larger spatial and/or temporal scales carries biases that depend on the heterogeneity and spatial correlation of the interacting fields and the nonlinearity of the responses. Mimicking commonly applied satellite data analyses for calculation of albedo susceptibility S o , we quantify S o aggregation biases using an ensemble of 127 large eddy simulations of marine stratocumulus. We explore the cloud field properties that control this spatial aggregation bias and quantify the bias for a large range of shallow stratocumulus cloud conditions manifesting a variety of morphologies and ranges of cloud fractions. We show that S o spatial aggregation biases can be on the order of hundreds of percent, depending on the methodology. Key uncertainties emanate from the typically applied adiabatic drop concentration N d retrieval, the correlation between aerosol and cloud fields, and the extent to which averaging reduces the variance in cloud albedo A c and N d . So biases are more often positive than negative and are highly correlated with biases in the liquid water path adjustment. Temporal aggregation biases are shown to offset spatial aggregation biases. Both spatial and temporal biases have significant implications for observationally based assessments of aerosol indirect effects and our inferences of underlying aerosol–cloud–radiation effects.

54 ENVIRONMENTAL SCIENCES↗

Computationally efficient subglacial drainage modelling using Gaussian process emulators: GlaDS-GP v1.0

Subglacial drainage models represent water flow at the ice–bed interface through coupled distributed and channelized systems to determine water pressure, discharge, and drainage system geometry. While they are used to understand processes such as the relationship between surface melt and ice flow, the number of uncertain model parameters and the computational cost of running models makes it difficult to adequately explore the high-dimensional parameter space and evaluate uncertainty in model predictions. Here, we develop Gaussian process (GP) emulators that make fast predictions with associated uncertainty of subglacial drainage model outputs. Using a truncated principal component (PC) basis representation, we construct a GP emulator for diurnally averaged subglacial water pressure. We also explore emulation of scalar variables describing drainage efficiency and configuration. We train the emulators using ensembles of up to 512 simulations varying eight parameters of the Glacier Drainage System (GlaDS) model on a synthetic domain intended to represent an ice-sheet margin. The emulators make predictions ∼ 1000 times faster than GlaDS simulations, with errors <3 % for the water pressure field and ∼ 5 %–9 % for drainage efficiency and configuration. We apply the emulators to explore the eight-dimensional parameter space by computing variance-based parameter sensitivity indices, finding that three parameters (ice flow coefficient, bed bump aspect ratio, and the subglacial cavity system conductivity) explain 90 % of the variance in modelled water pressure in response to parameter changes. The GP emulator approach described here is well suited to integrating observational data with models to make calibrated, credible predictions of subglacial drainage.

58 GEOSCIENCES↗

CMIP7 data request: impacts and adaptation priorities and opportunities

The Coupled Model Intercomparison Project Phase 7 (CMIP7) undertook an extensive process to gather community input and refine data requests related to impacts and adaptation applications of Earth System Model (ESM) outputs. The Impacts and Adaptation (I&A) Data Request Team worked with CMIP7 leadership to distribute an open solicitation across many communities that use climate model outputs requesting inputs for new and existing variables, the most applicable temporal characteristics, and groupings of variables that together allow for specific application opportunities. This input was then collated and translated into CMIP7 standard templates for inclusion in the broader data request, leading to 13 I&A data request opportunities, 60 variable groups and 539 unique variables sought by vulnerability, impacts, adaptation, and climate services user communities. Here, we describe these opportunities and variable groups, as well as new insights into how ESM groups can prioritize outputs that set off a chain of further analyses, ultimately informing decisions impacting society and natural systems. These include an emphasis on high-resolution outputs to allow further modeling of climate impacts at regional and local scales, improved representation of extreme weather events, enhanced accuracy of downscaling and bias-adjustment techniques, and support for more detailed assessments for decision-making in adaptation and mitigation strategies. There is also broad interest in more extensive provisioning of two-dimensional variables at the Earth's surface, prioritizing experiments that enhance our understanding of both the recent past and future scenarios, and providing outputs that allow further downscaling and bias adjustment. We emphasize that variable groups are the fundamental level at which to engage with the I&A data request, matching the scale of input and the way output provision enables specific I&A applications. Given resource constraints, we applaud CMIP7 efforts to foster strong engagement and communication between ESM groups and the I&A team to build consensus around prudent compromises in priority variables, temporal resolutions, simulation experiments, time subsets, and ensemble members.

Ruane, Alex C. [NASA Goddard Inst. for Space Studi↗