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๐Ÿ” biological evolution ๐Ÿ“‚ Chemistry
Showing 2506 results for "biological evolution" in Chemistry
Chemistry Preprint PDF DOI

Experimentally Accurate Graph Neural Network Predictions of Core-Electron Binding Energies

Adam E. A. Fouda, Joshua Zhou, Rodrigo Ferreira, Patrick Phillips, Valay Agarawal, Bhavnesh Jangid, Jacob J. Wardzala, Rui Ding, Junhong Chen, Nicole Tebaldi, Phay J. Ho, Laura Gagliardi, Linda Young ยท 2026

Graph neural network architectures are advantageous for predicting core-electron binding energies which depend on local bond environment effects, as the number of message passing layers defines the toโ€ฆ

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Chemistry Preprint PDF DOI

Solv-eze: Automated Placement of Explicit Water Molecules Using 3D-RISM

Felipe Silva Carvalho, Steven Ramsey, Tom Kurtzman, Tyler Luchko ยท 2026

Molecular dynamics (MD) simulations are widely used to study biological systems, where water molecules often play a critical role in protein-ligand interactions. In conventional MD preparation protocoโ€ฆ

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Chemistry Preprint PDF DOI

Computational Design and Experimental Validation of Photoactive PARP1 Inhibitors

Simon Axelrod, Miroslav Kaspar, Kristyna Jelinkova, Marketa Smidkova, Erika Bartunkova, Sille Stepanova, Eugene Shakhnovich, Vaclav Kasicka, Martin Dracinsky, Zlatko Janeba, Rafael Gomez-Bombarelli ยท 2026

Light-activated drugs are a promising way to treat localized diseases for which existing treatments have severe side effects. However, their development is complicated by the set of photophysical and โ€ฆ

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Chemistry Preprint PDF DOI

Broadband impulsive stimulated Raman spectroscopy reveals electronic state-specific vibronic coupling and vibrational coherence transfer through nonadiabatic electronic coupling

Ramandeep Kaur, Shaina Dhamija, Garima Bhutani, Amit Kumar, Arijit K. De ยท 2026

Vibrational wavepacket dynamics in the ground (X) and excited (B) electronic states of iodine under impulsive-pump/broadband-probe excitation are revisited. A method for accurate chirp correction, necโ€ฆ

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Chemistry Preprint PDF DOI

DeepHartree: A Poisson-Coupled Neural Field for Scalable Density Functional Theory

Jiankun Wu, Jinming Fan, Chao Qian, Shaodong Zhou ยท 2026

Ab initio calculations are fundamentally bottlenecked for large systems by the steep computational scaling of solving self-consistent field (SCF) equations. While machine learning offers potential accโ€ฆ

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Chemistry Preprint PDF DOI

Performance of Quadrupole Mass Filter with Tapered and Flared Geometry

Anushree Dutta, Pintu Mandal, Nabanita Deb ยท 2026

The performance of a quadrupole mass filter (QMF) is highly sensitive to deviations from ideal electrode geometry. In this work, we investigate the effect of small inward and outward tilting of cylindโ€ฆ

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Chemistry Preprint PDF DOI

Chaos Gated Tunneling Drives Molecular Reactivity in Astrophysical Environments

Saptarshi G. Dastider, K. Prashant, P. Shruti, C. Sudheesh, Jobin Cyriac ยท 2026

Accurate modeling of ion-molecule reaction networks is essential for understanding the chemical evolution of planetary ionospheres, particularly for giant planets where proton-transfer chains drive atโ€ฆ

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Restoring the Conical Intersection Topology using Convex Density Functional Theory

Federico Rossi, Tommaso Giovannini, Henrik Koch ยท 2026

Conical intersections are central to the description of photophysics and photochemistry. Nevertheless, in non-adiabatic molecular dynamics simulations, they are fundamentally challenging for single-reโ€ฆ

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Chromatographic Peak Shape from a Stochastic-Diffusive Model with Multiple Retention Mechanisms: Analytic Time-Domain Expression and Derivatives

Hernan R. Sanchez ยท 2026

A time-domain analytic expression for chromatographic peak shapes is derived within a stochastic-diffusive framework that incorporates axial diffusion (molecular and multipath/Eddy), finite initial spโ€ฆ

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Beyond the Virial Expansion: Microscopic Origins of Partial Molar Volumes in LiCl Solutions

Chun-Ting Lin, Diganta Dasgupta, Tinglu Yang, Cesare Malosso, Giulia Sormani, Colin Egan, Giovanni Bussi, Ali Hassanali, Paul S. Cremer ยท 2026

Although electrolyte density measurements have been reported for over a century, employing them to obtain accurate partial molar volume (PMV) profiles as a function of salt concentration has remained โ€ฆ

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Tailoring Attosecond Charge Migration in Native Molecular Ions

Evan Munaro-Langloys, Franck Lepine, Victor Despre ยท 2026

Attosecond chemistry involves developing strategies to manipulate electronic coherent waves in molecules, which can influence the outcome of photoinduced reactions. While recent progress in this fieldโ€ฆ

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Toward Accurate RIXS Spectra at Heavy Element Edges: A Relativistic Four-Component and Exact Two-Component TDDFT Approach

Lukas Konecny, Muhammed A. Dada, Daniel R. Nascimento, Michal Repisky ยท 2026

We present a relativistic time-dependent density functional theory (TDDFT) approach for the simulation of resonant inelastic X-ray scattering (RIXS) spectra, based on both a full four-component (4c) Dโ€ฆ

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Fidelity of Machine Learned Potentials: Quantitative Assessment for Protonated Oxalate

Chen Qu, Paul L. Houston, Qi Yu, Apurba Nandi, Joel M. Bowman, Valerii Andreichev, Silvan Kaser, Markus Meuwly ยท 2026

There has been a veritable explosion of methods and software to perform machine-learned regression on datasets of electronic energies and forces to develop high-dimensional machine learned potential eโ€ฆ

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Chemistry Preprint PDF DOI

Surface Plasmons in the Continuum

Mohit Chaudhary, Hans-Christian Weissker, Daniele Toffoli, Mauro Stener, Victor Despre, Franck Rabilloud, Jean Lerme, Rajarshi Sinha-Roy ยท 2026

The interest to foster plasmonic applications at energies in the ultra-violet, has escalated research initiatives in clusters of unconventional plasmonic materials like aluminum and indium,for which tโ€ฆ

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Experimental proof of strong $\Pi$-$\Sigma$ mixing in the Renner-Teller and Pseudo-Jahn-Teller affected CCH$^+$ ($^3\Pi$) ion

Kim Steenbakkers, P. Bryan Changala, Weslley G. D. P. Silva, John F. Stanton, Filippo Lipparini, Jurgen Gauss, Oskar Asvany, Gerrit C. Groenenboom, Britta Redlich, Stephan Schlemmer, Sandra Brunken ยท 2026

The ethynyl radical cation, CCH$^+$ ($^3\Pi$), offers a unique system for fundamental spectroscopic studies of non-adiabatic effects due to its open-shell linear structure and the presence of a low-lyโ€ฆ

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Coupled-Cluster Imaginary-Time Evolution and the Coupled-Cluster Energy Variance

Yuhang Ai, Huanchen Zhai, Garnet Kin-Lic Chan ยท 2026

We discuss a coupled-cluster formalism for carrying out imaginary-time evolution from an arbitrary reference, and study the properties of the resulting evolution trajectories. The evolution converges โ€ฆ

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The BOS-Lig Dataset: Accurate Ligand Charges from a Consensus Approach for 66,810 Experimentally Synthesized Ligands

Roland G. St. Michel, Ryan J. Jang, Aaron G. Garrison, Ilia Kevlishvili, Heather J. Kulik ยท 2026

Understanding ligand properties is essential for computational high-throughput screening of transition metal complexes. However, ligand properties such as net charge and other information such as theiโ€ฆ

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Dissociative Single and Double Ionization of Pyridine

Sitanath Mondal, Brendan Wouterlood, Gustavo A. Garcia, Laurent Nahon, Frank Stienkemeier, Sebastian Hartweg ยท 2026

Dissociative ionization processes of simple heterocyclic molecules like pyridine are relevant for an understanding of radiation damage processes in biological material that occur naturally in complex โ€ฆ

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Efficient Auxiliary-Field Quantum Monte Carlo using Isometric Tensor Hypercontraction

Maxine Luo, Victor Chen, Yu Wang, Christian B.Mendl ยท 2026

Auxiliary Field Quantum Monte Carlo (AFQMC) has emerged as a powerful framework for treating strongly correlated electronic systems, offering a favorable balance between computational cost and accuracโ€ฆ

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VIANA: character Value-enhanced Intensity Assessment via domain-informed Neural Architecture

Luana P. Queiroz, Icaro S. C. Bernardes, Ana M. Ribeiro, Bernardo M. Aguilera-Mercado, Idelfonso B. R. Nogueira ยท 2026

Predicting the perceived intensity of odorants remains a fundamental challenge in sensory science due to the complex, non-linear behavior of their response, as well as the difficulty in correlating moโ€ฆ

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