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At least 541 records · Page 30

Understanding the effect of density functional choice and van der Waals treatment on predicting the binding configuration, loading, and stability of amine-grafted metal organic frameworks

Metal organic frameworks (MOFs) are crystalline, three-dimensional structures with high surface areas and tunable porosities. Made from metal nodes connected by organic linkers, the exact properties of a given MOF are determined by node and linker choice. MOFs hold promise for numerous applications, including gas capture and storage. M2(4,4′-dioxidobiphenyl-3,3′-dicarboxylate)—henceforth simply M2(dobpdc), with M = Mg, Mn, Fe, Co, Ni, Cu, or Zn—is regarded as one of the most promising structures for CO2 capture applications. Further modification of the MOF with diamines or tetramines can significantly boost gas species selectivity, a necessity for the ultra-dilute CO2 concentrations in the direct-air capture of CO2. There are countless potential diamines and tetramines, paving the way for a vast number of potential sorbents to be probed for CO2 adsorption properties. The number of amines and their configuration in the MOF pore are key drivers of CO2 adsorption capacity and kinetics, and so a validation of computational prediction of these quantities is required to suitably use computational methods in the discovery and screening of amine-functionalized sorbents. In this work, we study the predictive accuracy of density functional theory and related calculations on amine loading and configuration for one diamine and two tetramines. In particular, we explore the Perdew–Burke–Ernzerhof (PBE) functional and its formulation for solids (PBEsol) with and without the Grimme-D2 and Grimme-D3 pairwise corrections (PBE+D2/3 and PBEsol+D2/3), two revised PBE functionals with the Grimme-D2 and Grimme-D3 pairwise corrections (RPBE+D2/3 and revPBE+D2/3), and the nonlocal van der Waals correlation (vdW-DF2) functional. We also investigate a universal graph deep learning interatomic potential’s (M3GNet) predictive accuracy for loading and configuration. These results allow us to identify a useful screening procedure for configuration prediction that has a coarse component for quick evaluation and a higher accuracy component for detailed analysis. Our general observation is that the neural network-based potential can be used as a high-level and rapid screening tool, whereas PBEsol+D3 gives a completely qualitatively predictive picture across all systems studied, and can thus be used for high accuracy motif predictions. We close by briefly exploring the predictions of relative thermal stability for the different functionals and dispersion corrections.

Chemistry↗

Orbit tomography of energetic particle distribution functions

Both fast ions and runaway electrons are described by distribution functions, the understanding of which are of critical importance for the success of future fusion devices such as ITER. Typically, energetic particle diagnostics are only sensitive to a limited subsection of the energetic particle phase-space which is often insufficient for model validation. However, previous publications show that multiple measurements of a single spatially localized volume can be used to reconstruct a distribution function of the energetic particle velocity-space by using the diagnostics' velocity-space weight functions, i.e. velocity-space Tomography. In this work we use the recently formulated orbit weight functions to remove the restriction of spatially localized measurements and present orbit tomography, which is used to reconstruct the 3D phase-space distribution of all energetic particle orbits in the plasma. Through a transformation of the orbit distribution, the full energetic particle distribution function can be determined in the standard {energy, pitch, r, z}-space. We benchmark the technique by reconstructing the fast-ion distribution function of an MHD-quiescent DIII-D discharge using synthetic and experimental FIDA measurements. We also use the method to study the redistribution of fast ions during a sawtooth crash at ASDEX upgrade using FIDA measurements. Lastly, a comparison between the orbit tomography and velocity-space tomography is shown.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Liouville theory, AdS 2 string, and three-point functions

This is a write-up of the lectures given in Young Researchers Integrability School 2017. The main goal is to explain the connection between the ODE/IM correspondence and the classical integrability of strings in AdS. As a warm up, we first discuss the classical three-point function of the Liouville theory. The starting point is the well-known fact that the classical solutions to the Liouville equation can be constructed by solving a Schrodinger-like differential equation. We then convert it into a set of functional equations using a method similar to the ODE/IM correspondence. The classical three-point functions can be computed directly from these functional equations, and the result matches with the classical limit of the celebrated DOZZ formula. We then discuss the semi-classical three-point function of strings in AdS 2 and show that one can apply a similar idea by making use of the classical integrability of the string sigma model on AdS 2 . Furthermore, the result is given in terms of the "massive" generalization of Gamma functions, which show up also in string theory on pp-wave backgrounds and the twistorial generalization of topological string.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Interactive tools for functional annotation of bacterial genomes

Automated annotations of protein functions are error-prone because of our lack of knowledge of protein functions. For example, it is often impossible to predict the correct substrate for an enzyme or a transporter. Furthermore, much of the knowledge that we do have about the functions of proteins is missing from the underlying databases. We discuss how to use interactive tools to quickly find different kinds of information relevant to a protein’s function. Many of these tools are available via PaperBLAST (http://papers.genomics.lbl.gov). Combining these tools often allows us to infer a protein’s function. Ideally, accurate annotations would allow us to predict a bacterium’s capabilities from its genome sequence, but in practice, this remains challenging. We describe interactive tools that infer potential capabilities from a genome sequence or that search a genome to find proteins that might perform a specific function of interest.

59 BASIC BIOLOGICAL SCIENCES↗

Validation of selection function, sample contamination and mass calibration in galaxy cluster samples

ABSTRACT We construct and validate the selection function of the MARD-Y3 galaxy cluster sample. This sample was selected through optical follow-up of the 2nd ROSAT faint source catalogue with Dark Energy Survey year 3 data. The selection function is modelled by combining an empirically constructed X-ray selection function with an incompleteness model for the optical follow-up. We validate the joint selection function by testing the consistency of the constraints on the X-ray flux–mass and richness–mass scaling relation parameters derived from different sources of mass information: (1) cross-calibration using South Pole Telescope Sunyaev-Zel'dovich (SPT-SZ) clusters, (2) calibration using number counts in X-ray, in optical and in both X-ray and optical while marginalizing over cosmological parameters, and (3) other published analyses. We find that the constraints on the scaling relation from the number counts and SPT-SZ cross-calibration agree, indicating that our modelling of the selection function is adequate. Furthermore, we apply a largely cosmology independent method to validate selection functions via the computation of the probability of finding each cluster in the SPT-SZ sample in the MARD-Y3 sample and vice versa. This test reveals no clear evidence for MARD-Y3 contamination, SPT-SZ incompleteness or outlier fraction. Finally, we discuss the prospects of the techniques presented here to limit systematic selection effects in future cluster cosmological studies.

79 ASTRONOMY AND ASTROPHYSICS↗

Non-Gaussianity in the weak lensing correlation function likelihood – implications for cosmological parameter biases

ABSTRACT We study the significance of non-Gaussianity in the likelihood of weak lensing shear two-point correlation functions, detecting significantly non-zero skewness and kurtosis in 1D marginal distributions of shear two-point correlation functions in simulated weak lensing data. We examine the implications in the context of future surveys, in particular LSST, with derivations of how the non-Gaussianity scales with survey area. We show that there is no significant bias in 1D posteriors of Ωm and σ8 due to the non-Gaussian likelihood distributions of shear correlations functions using the mock data (100 deg2). We also present a systematic approach to constructing approximate multivariate likelihoods with 1D parametric functions by assuming independence or more flexible non-parametric multivariate methods after decorrelating the data points using principal component analysis (PCA). While the use of PCA does not modify the non-Gaussianity of the multivariate likelihood, we find empirically that the 1D marginal sampling distributions of the PCA components exhibit less skewness and kurtosis than the original shear correlation functions. Modelling the likelihood with marginal parametric functions based on the assumption of independence between PCA components thus gives a lower limit for the biases. We further demonstrate that the difference in cosmological parameter constraints between the multivariate Gaussian likelihood model and more complex non-Gaussian likelihood models would be even smaller for an LSST-like survey. In addition, the PCA approach automatically serves as a data compression method, enabling the retention of the majority of the cosmological information while reducing the dimensionality of the data vector by a factor of ∼5.

79 ASTRONOMY AND ASTROPHYSICS↗

A selection function toolbox for subsets of astronomical catalogues

ABSTRACT Large catalogues are ubiquitous throughout astronomy, but most scientific analyses are carried out on smaller samples selected from these catalogues by chosen cuts on catalogued quantities. The selection function of that scientific sample – the probability that a star in the catalogue will satisfy these cuts and so make it into the sample – is thus unique to each scientific analysis. We have created a general framework that can flexibly estimate the selection function of a sample drawn from a catalogue in terms of position, magnitude and colour. Our method is unique in using the binomial likelihood and accounting for correlations in the selection function across position, magnitude, and colour using Gaussian processes and spherical harmonics. We have created a new open-source python package selectionfunctiontoolbox that implements this framework and used it to make three different estimates of the APOGEE DR16 red giant sample selection function, as a subset of 2MASS, with each estimate using an increasing amount of technical knowledge of the APOGEE targeting. In a companion paper, we applied our methodology to derive estimates of the astrometric and spectroscopic selection functions of Gaia EDR3. Our framework will make it trivial for astrophysicists to estimate the selection function that they should be using with the custom sample of stars that they have chosen to answer their scientific question.

79 ASTRONOMY AND ASTROPHYSICS↗

On the impact of the galaxy window function on cosmological parameter estimation

One important source of systematics in galaxy redshift surveys comes from the estimation of the galaxy window function. Up until now, the impact of the uncertainty in estimating the galaxy window function on parameter inference has not been properly studied. In this paper, we show that the uncertainty and the bias in estimating the galaxy window function will be salient for ongoing and next-generation galaxy surveys using a simulation-based approach. With a specific case study of cross-correlating emission-line galaxies from the DESI Legacy Imaging Surveys and the Planck cosmic microwave background lensing map, we show that neural network-based regression approaches to modelling the window function are superior in comparison to linear regression-based models. Here, we additionally show that the definition of the galaxy overdensity estimator can impact the overall signal-to-noise of observed power spectra. Finally, we show that the additive biases coming from the window functions can significantly bias the modes of the inferred parameters and also degrade their precision. Thus, a careful understanding of the window functions will be essential to conduct cosmological experiments.

79 ASTRONOMY AND ASTROPHYSICS↗

Exploring the dependence of gas cooling and heating functions on the incident radiation field with machine learning

ABSTRACT Gas cooling and heating functions play a crucial role in galaxy formation. But, it is computationally expensive to exactly compute these functions in the presence of an incident radiation field. These computations can be greatly sped up by using interpolation tables of pre-computed values, at the expense of making significant and sometimes even unjustified approximations. Here, we explore the capacity of machine learning to approximate cooling and heating functions with a generalized radiation field. Specifically, we use the machine learning algorithm XGBoost to predict cooling and heating functions calculated with the photoionization code cloudy at fixed metallicity, using different combinations of photoionization rates as features. We perform a constrained quadratic fit in metallicity to enable a fair comparison with traditional interpolation methods at arbitrary metallicity. We consider the relative importance of various photoionization rates through both a principal component analysis (PCA) and calculation of SHapley Additive exPlanation (shap) values for our XGBoost models. We use feature importance information to select different subsets of rates to use in model training. Our XGBoost models outperform a traditional interpolation approach at each fixed metallicity, regardless of feature selection. At arbitrary metallicity, we are able to reduce the frequency of the largest cooling and heating function errors compared to an interpolation table. We find that the primary bottleneck to increasing accuracy lies in accurately capturing the metallicity dependence. This study demonstrates the potential of machine learning methods such as XGBoost to capture the non-linear behaviour of cooling and heating functions.

79 ASTRONOMY AND ASTROPHYSICS↗

Cosmological constraints using Minkowski functionals from the first year data of the Hyper Suprime-Cam

We use Minkowski functionals to analyse weak lensing convergence maps from the first-year data release of the Subaru Hyper Suprime-Cam (HSC-Y1) survey. Minkowski functionals provide a description of the morphological properties of a field, capturing the non-Gaussian features of the Universe matter-density distribution. Using simulated catalogues that reproduce survey conditions and encode cosmological information, we emulate Minkowski functionals predictions across a range of cosmological parameters to derive the best-fit from the data. By applying multiple scales cuts, we rigorously mitigate systematic effects, including baryonic feedback and intrinsic alignments. From the analysis, combining constraints of the angular power spectrum and Minkowski functionals, we obtain S8≡σ8Ωm/0.3=0.808−0.046+0.033 and Ωm=0.293−0.043+0.157⁠. These results represent a 40 per cent improvement on the S8 constraints compared to using power spectrum only. Minkowski functionals results are consistent with other two-point, and higher order statistics constraints using the same data, being in agreement with CMB results from the Planck S8 measurements. Our study demonstrates the power of Minkowski functionals beyond two-point statistics to constrain and break the degeneracy between Ωm and σ8⁠.

79 ASTRONOMY AND ASTROPHYSICS↗

Thermal hybrid exchange-correlation density functional for improving the description of warm dense matter

Finite-temperature density functional theory (FT-DFT) has become a standard tool for first principles calculations of the properties of warm dense matter (WDM) relevant to high-energy density physics (HEDP) applications. In this work we introduce theoretical grounds of thermal hybrid exchange-correlation (XC) functionals within the generalized Mermin-Kohn-Sham scheme for an improved description of WDM. Building on the previously developed KSDT (Karasiev-Sjostrom-Dufty-Trickey) [Karasiev et al., Phys. Rev. Lett. 112, 076403 (2014)] local density approximation (LDA) and the KDT16 (Karasiev-Dufty-Trickey 2016) [Karasiev et al., Phys. Rev. Lett. 120, 076402 (2018)] generalized-gradient approximation (GGA) XC free-energy density functionals, we construct a new thermal hybrid XC functional, referred to here as KDT0. The KDT0 model at low temperature reduces to the popular ground-state PBE0 hybrid due to properties of the used KDT16 density functional approximation. Application to static calculations of electronic band gap and band structure at a wide range of temperatures for various systems of interest to HEDP show that KDT0 provides a significant improvement to the lower LDA and GGA rung XC functionals and to the ground-state PBE0 hybrid.

36 MATERIALS SCIENCE↗

Examining the EMC effect using the ${F}_{2}^{n}$ neutron structure function

The persistently mysterious deviations from unity of the ratio of nuclear target structure functions to those of deuterium as measured in deep inelastic scattering (often termed the “EMC effect”) have become the canonical observable for studies of nuclear medium modifications to free nucleon structure in the valence regime. The structure function of the free proton is well known from numerous experiments spanning decades. The free neutron structure function, however, has remained difficult to access. Recently it has been extracted in a systematic study of the global data within a parton distribution function extraction framework and is available from the CTEQ–Jefferson Lab (CJ) Collaboration. Here, we leverage the latter to introduce a new method to study the EMC effect in nuclei by reexamining existing data in light of the the magnitude of the medium modifications to the free neutron and proton structure functions independently. From the extraction of the free neutron from world data, it is possible to examine the nuclear effects in deuterium and their contribution to our interpretation of the EMC effect. In this study, we observe that the ratio of the deuteron to the sum of the free neutron and proton structure functions has some x B and Q 2 dependencies that impact the magnitude of the EMC effect as typically observed. Specifically, different EMC slopes are obtained when data from different x B and Q 2 values are utilized. Furthermore, while a linear correlation persists between the EMC and short range correlation effects, the slope is modified when deuteron nuclear effects are removed.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Multiparticle integral and differential correlation functions

This paper formalizes the use of integral and differential cumulants for measurements of multiparticle event-by-event transverse momentum fluctuations, rapidity fluctuations, as well as net-charge fluctuations. This enables the introduction of multiparticle balance functions, defined based on differential correlation functions (factorial cumulants), that suppress two- and three-prong resonance decays effects and enable measurements of underlying long-range correlations obeying quantum number conservation constraints. These multiparticle balance functions satisfy simple sum rules determined by quantum number conservation. It is additionally shown that these multiparticle balance functions arise as an intrinsic component of high-order net-charge cumulants. This implies that the magnitude of these cumulants, measured in a specific experimental acceptance, is strictly constrained by charge conservation and primarily determined by the rapidity and momentum width of these balance functions. The paper also presents techniques to reduce the computation time of differential correlation functions up to order n = 10 based on the methods of moments. Published by the American Physical Society 2024

Physics↗

Weak structure functions in $\nu_l-N$ and $\nu_l-A$ scattering with nonperturbative and higher order perturbative QCD effects

We study the effect of various perturbative and nonperturbative QCD corrections on the free nucleon structure functions [FiNWI(x,Q2);i=1–3] and their implications in the determination of nuclear structure functions. The evaluation of the nucleon structure functions has been performed by using the MMHT 2014 parton distribution functions (PDFs) parametrization, and the target mass correction (TMC) and higher twist (HT) effects are incorporated following the works of Schienbein et al. and Dasgupta et al., respectively. These nucleon structure functions are taken as input in the determination of nuclear structure functions. The numerical calculations for the νl/ν¯l-A deep inelastic scattering (DIS) process have been performed by incorporating the nuclear medium effects like Fermi motion, binding energy, nucleon correlations, mesonic contributions, shadowing, and antishadowing in several nuclear targets such as carbon, polystyrene scintillator, iron, and lead, which are being used in MINERνA, and in argon nuclei, which is relevant for the ArgoNeuT and DUNE experiments. The differential scattering cross sections d2σAWIdxdy and (dσAWIdx/dσCHWIdx) have also been studied in the kinematic region of the MINERνA experiment. The theoretical results are compared with the recent experimental data of MINERνA and the earlier data of the NuTeV, CCFR, CDHSW, and CHORUS Collaborations. Moreover, a comparative analysis of the present results for the ratio (dσAWIdx/dσCHWIdx), and the results from the Monte Carlo (MC) generator GENIE and other phenomenological models of Bodek and Yang, and Cloet et al., has been performed in the context of the MINERνA experiment. The predictions have also been made for the ν¯l-A cross section relevant for the MINERνA experiment.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Definition of fragmentation functions and the violation of sum rules

We point out a problem with the formulation and derivations of sum rules for quark fragmentation functions that impacts their validity in QCD, but which potentially points toward an improved understanding of final states in inclusive hard processes. Fragmentation functions give the distribution of final-state hadrons arising from a parton exiting a hard scattering, and the sum rules for momentum, electric charge, etc. express conservation of these quantities. The problem arises from a mismatch between the quark quantum numbers of the initial quark and the fact that all observed final-state hadrons are confined bound states with color zero. We point that, in a confining theory like QCD, the Wilson line in the operator definition of a fragmentation function entails that the final state in a fragmentation function includes a bound state in the external field generated by the Wilson line. We justify this with the aid of general features of string hadronization. The anomalous bound states are restricted to fractional momentum z = 0 . They tend to invalidate sum rules like the one for charge conservation when applied to the fragmentation functions inferred from experimental data but not the momentum sum rule. We propose to exploit our ideas in future studies as a way to relate the fragmentation functions extracted from inclusive cross sections to more detailed nonperturbative descriptions of final state hadronization. We also describe scenarios wherein the traditional sum rules might remain approximately valid with a reasonably high degree of accuracy. Published by the American Physical Society 2024

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

QCD factorization with multihadron fragmentation functions

Important aspects of quantum chromodynamics (QCD) factorization theorems are the properties of the objects involved that can be identified as universal. One example is that the definitions of parton densities and fragmentation functions for different types of hadrons differ only in the identity of the nonperturbative states that form the matrix elements, but are otherwise the same. This leads to independence of perturbative calculations on nonperturbative details of external states. It also lends support to interpretations of correlation functions as encapsulations of intrinsic nonperturbative properties. These characteristics have usually been presumed to still hold true in fragmentation functions even when the observed nonperturbative state is a small-mass cluster of n hadrons rather than simply a single isolated hadron. However, the multidifferential aspect of cross sections that rely on these latter types of fragmentation functions complicates the treatment of kinematical approximations in factorization derivations. That has led to recent claims that the operator definitions for fragmentation functions need to be modified from the single hadron case with nonuniversal prefactors. With such concerns as our motivation, we retrace the steps for factorizing the unpolarized semi-inclusive e + e − annihilation cross section and confirm that they do apply without modification to the case of a small-mass multihadron observed in the final state. In particular, we verify that the standard operator definition from single hadron fragmentation, with its usual prefactor, remains equally valid for the small-mass n -hadron case with the same hard parts and evolution kernels, whereas the more recently proposed definitions with nonuniversal prefactors do not. Our results reaffirm the reliability of most past phenomenological applications of dihadron fragmentation functions. Published by the American Physical Society 2025

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Lattice QCD Calculations of Transverse-Momentum-Dependent Soft Function through Large-Momentum Effective Theory

The transverse-momentum-dependent (TMD) soft function is a key ingredient in QCD factorization of Drell-Yan and other processes with relatively small transverse momentum. We present a lattice QCD study of this function at moderately large rapidity on a 2 + 1 flavor CLS dynamic ensemble with a = 0.098 fm. We extract the rapidity-independent (or intrinsic) part of the soft function through a large-momentumtransfer pseudoscalar meson form factor and its quasi-TMD wave function using leading-order factorization in large-momentum effective theory. We also investigate the rapidity-dependent part of the soft function—the Collins-Soper evolution kernel—based on the large-momentum evolution of the quasi-TMD wave function.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Lattice QCD Calculation of the Subtraction Function in Forward Compton Amplitude

The subtraction function plays a pivotal role in calculations involving the forward Compton amplitude, which is crucial for predicting the Lamb shift in muonic atoms, as well as the proton-neutron mass difference. In this Letter, we present a lattice QCD calculation of the subtraction function using two domain wall fermion gauge ensembles near the physical pion mass. We utilize a recently proposed subtraction point, demonstrating its advantage in mitigating statistical and systematic uncertainties by eliminating the need for ground-state subtraction. Our results reveal significant contributions from N⁢π intermediate states to the subtraction function. Incorporating these contributions, we compute the proton, neutron, and nucleon isovector subtraction functions at photon momentum transfer Q 2 ϵ[0,2] GeV 2 . For the proton subtraction function, we compare our lattice results with chiral perturbation theory prediction at low Q 2 and with the results from the perturbative operator-product expansion at high Q 2 . Finally, using these subtraction functions as input, we determine their contribution to two-photon exchange effects in the Lamb shift and isovector nucleon electromagnetic self-energy.

74 ATOMIC AND MOLECULAR PHYSICS↗