All-Graphene Quantum Dot-Derived Battery: Regulating Redox Activity Through Localized Subdomains.

In the quest for materials sustainability for grid-scale applications, graphene quantum dot (GQD), prepared via eco-efficient processes, is one of the promising graphitic-organic matters that have the potential to provide greener solutions for replacing metal-based battery electrodes. However, the utilization of GQDs as electroactive materials has been limited; their redox behaviors associated with the electronic bandgap property from the sp2 carbon subdomains, surrounded by functional groups, are yet to be understood. Here, the experimental realization of a subdomained GQD-based anode with stable cyclability over 1000 cycles, combined with theoretical calculations, enables a better understanding of the decisive impact of controlled redox site distributions on battery performance. The GQDs are further employed in cathode as a platform for full utilization of inherent electrochemical activity of bio-inspired redox-active organic motifs, phenoxazine. Using the GQD-derived anode and cathode, an all-GQD battery achieves a high energy density of 290 Wh kgcathode -1 (160 Wh kgcathode+anode -1 ), demonstrating an effective way to improve reaction reversibility and energy density of sustainable, metal-free batteries.

Substituent-Induced Hyperconjugation: Origin of the Structural Effects on the Efficiency of Photochemical Ring Opening.

Photochemical ring-opening reactions are among the most extensively employed chemical reactions in the field of chemistry. Owing to their significance, molecular-level studies of these reactions have been widely conducted. One of the major considerations in investigating the ring-opening dynamics of complex molecules on the molecular scale is the differences in dynamics between different conformers because the number of conformers arising from a specific substrate rapidly increases with the complexity of the substrate. However, to date, studies dealing with this problem have been limited to specific individual cases. That is, a rule applicable to arbitrary conformers to estimate and explain the effects of the molecular structure, such as substituents and conformations, on photochemical ring opening has not been established. Herein, we propose the concept of substituent-induced electron density leakage via hyperconjugation as a candidate for this general rule. Based on our hypothesis, we present an indicator that can predict the efficiency of the photochemical ring-opening reactions of various conformers. The relative error between the ring-opening efficiency as obtained from the indicator and that obtained from the nonadiabatic simulations was less than 25% in 56 of the 66 conformers arising from 1,3-cyclohexadiene and 12 distinct analogues. This approach offers the possibility of accurately and quickly predicting the photochemical ring-opening efficiency of arbitrary molecules in arbitrary conformations.

Molecular electrostatic potential as a general and versatile indicator for electronic substituent effects: statistical analysis and applications.

It is necessary to quantitatively determine substituent effects to accurately elucidate reaction mechanisms in the field of organic chemistry. This paper reports that the molecular electrostatic potential (MESP) can be used as a general and versatile measure for the substituent effects in various chemical reactions by performing extensive density functional theory (DFT) calculations for more than 400 molecules, followed by statistical analyses. We observed a robust and linear correlation between the electrostatic potential and the substituent parameters for various cases of reactive systems, regardless of the DFT functionals, basis sets, and solvation models used. In addition, we statistically analysed the normality of the residuals from the linear regression to demonstrate that strong linear relationships hold universally, which indicates that the electrostatic potential can serve as a physically meaningful quantity for the predictive estimation of substituent effects. In contrast, conventionally used methods based on the charge deviation in the aromatic carbons, as computed using various charge analysis methods, (e.g., Hirshfeld charge analysis) do not demonstrate the statistical normality. Furthermore, we illustrate that MESP can be extensively adopted to strengthen the validity of the linear free energy relationships (LFERs) under various chemical conditions. The results revealed that the MESP shift derived by a functional group on a mono-substituted benzene ring is a strong predictor for the substituent effects on the electronic behaviours in chemical reactions; thus, it can serve as an alternative to other empirical parameters such as the Hammett or Swain-Lupton parameters, or the charge shift.

Reaction-path statistical mechanics of enzymatic kinetics.

We introduce a reaction-path statistical mechanics formalism based on the principle of large deviations to quantify the kinetics of single-molecule enzymatic reaction processes under the Michaelis-Menten mechanism, which exemplifies an out-of-equilibrium process in the living system. Our theoretical approach begins with the principle of equal a priori probabilities and defines the reaction path entropy to construct a new nonequilibrium ensemble as a collection of possible chemical reaction paths. As a result, we evaluate a variety of path-based partition functions and free energies by using the formalism of statistical mechanics. They allow us to calculate the timescales of a given enzymatic reaction, even in the absence of an explicit boundary condition that is necessary for the equilibrium ensemble. We also consider the large deviation theory under a closed-boundary condition of the fixed observation time to quantify the enzyme-substrate unbinding rates. The result demonstrates the presence of a phase-separation-like, bimodal behavior in unbinding events at a finite timescale, and the behavior vanishes as its rate function converges to a single phase in the long-time limit.

A novel germline mutation in hMLH1 in three Korean women with endometrial cancer in a family of Lynch syndrome: case report and literature review.

BACKGROUND: Endometrial cancer is often the sentinel cancer in women with Lynch syndrome, among which endometrioid endometrial cancer is the most common. We found a Korean case of uterine carcinosarcoma associated with Lynch syndrome. And we reviewed 27 Korean women with endometrial cancer associated with Lynch syndrome already released in case report so far. CASE PRESENTATION: The proband, a 45-year-old Korean woman received treatment for endometrioid adenocarcinoma. Her older sister and niece were treated for endometrioid adenocarcinoma and carcinosarcoma, respectively. Family history met the Amsterdam II criteria and immunohistochemical analysis revealed a loss of MLH1 and PMS2. They all harbored a previously unreported germline likely pathogenic variant in c.1367delC in MLH1. They underwent staging operations including total hysterectomy, bilateral salpingo-oophorectomy, pelvic/paraaortic lymph node dissection, and washing cytology. All three women were healthy without evidence of relapse for over 4 years. CONCLUSION: This report indicates a novel germline c.1367delC variant in MLH1, and presents a Korean case of uterine carcinosarcoma associated with Lynch syndrome. Furthermore, the c.1757_1758insC variant in MLH1 was suggested as a founder mutation in Lynch syndrome in Korean women.

Coarse-graining strategy for modeling effective, highly diffusive fluids with reduced polydispersity: A dynamical study.

We present a coarse-graining strategy for reducing the number of particle species in mixtures to achieve a simpler system with higher diffusion while preserving the total particle number and characteristic dynamic features. As a system of application, we chose the bidisperse Lennard-Jones-like mixture, discovered by Kob and Andersen [Phys. Rev. Lett. 73, 1376 (1994)], possessing a slow dynamics due to the fluid's multi-component character with its apparently unconventional choice for the pair potential of the type-A-type-B arrangement. We further established in a so-formed coarse-grained and temperature-independent monodisperse system an equilibrium structure with a radial distribution function resembling its mixture counterpart. This one-component system further possesses similar dynamic features such as glass transition temperature and critical exponents while subjected to Newtonian mechanics. This strategy may finally lead to the manufacturing of new nanoparticle/colloidal fluids by experimentally modeling only the outcoming effective pair potential(s) and no other macroscopic quantity.

Many-chain effects on the co-nonsolvency of polymer brushes in a good solvent mixture.

Polymer brushes normally swell in a good solvent and collapse in a poor solvent. An abnormal response of polymer brushes, so-called co-nonsolvency, is the phenomenon where the brush counter-intuitively collapses in a good solvent mixture. In this work, we employed molecular dynamics simulations to investigate the structural properties of the grafted polymers in the occurrence of co-nonsolvency. Brushes with various grafting densities were considered to study the effect of topologically excluded volumes on the co-nonsolvency. We found that the brush height follows a novel scaling behavior of the grafting density h ∼ σg0.71 in the co-nonsolvent mixture. Using the scaling exponent and Alexander-de Gennes theory, an analytic function that predicts the monomer density was obtained. The many-chain effects in the co-nonsolvent lead to the formation of both intermolecular and intramolecular bridging structures. Increasing the grafting density entails lower looping events occuring because of the intermolcular bridging, causing diverse structural properties. We report how the average thickness, the polymer orientation, and the looping probability vary as the grafting density increases. Based on these observations, we constructed a phase diagram of the polymer brush system using the average thickness and orientation as order parameters. Our simulations and analytical results reveal the nature of co-nonsolvency in polymer brushes in an explicit way and will help to provide practical guidelines for applications such as drug delivery and sensor devices.

Understanding the charging dynamics of an ionic liquid electric double layer capacitor via molecular dynamics simulations.

We investigate the charging phenomena of an electric double layer capacitor (EDLC) by conducting both equilibrium and non-equilibrium molecular dynamics (MD) simulations. A graphene electrode and 1-ethyl-3-methylimidazolium thiocyanate ([EMIM]+[SCN]-) ionic liquid were used as a system for the EDLC. We clarify the ionic layer structure and show that an abrupt change of the ionic layers leads to a high differential capacitance of the EDLC. The charging simulations reveal that the charging dynamics of the EDLC is highly dependent on the rearrangement of the ionic layer structure. Particularly, the electrode charge during the charging process is consistent with the perpendicular displacement of ionic liquid molecules. From this property, we analyze the contribution of each molecular ion to the electrode charge stored during charging. Charging of the EDLC is largely dependent on the desorption of the co-ions from the electrode rather than the adsorption of the counter-ions. In addition, the contribution of bulk ions to the charge stored in the EDLC is as important as that of ions adjacent to the electrode surface contrary to the conventional viewpoint. From these results, we identify the charging mechanism of the EDLC and discuss the relevance to experimental results. Our findings in the present study are expected to play an important role in designing an efficient EDLC with a novel perspective on the charging of the EDLC.

Hybrid Laparoendoscopic Single-Site Surgery Using a 2-mm Mini-Laparoscopic Instrument versus Conventional Three-Port Laparoscopy for Gynecologic Adnexal Diseases: A Prospective Randomized Trial.

BACKGROUND: Despite the advantages of laparoendoscopic single-site surgery (LESS), it has certain limitations that include longer surgical time, larger incision, and instrument collision. OBJECTIVE: To overcome these limitations, we incorporated a suprapubic 2-mm needle forceps into our hybridized LESS (hLESS) and evaluated its efficacy for benign adnexal disease in comparison with three-port laparoscopy (TPL). METHODS: This prospective study included 61 women randomly assigned in a 1:1 ratio. Incisions of 12 and 2 mm were made, respectively, at the umbilicus and suprapubic areas for hLESS. The length of surgery was compared. Postoperative pain was evaluated using a visual analog scale score, and consumption of analgesics. Cosmetic outcomes were assessed using a modified Vancouver Scar Scale and a body image questionnaire. RESULTS: The length of surgery was found to be similar. The pain score 2-h postoperatively was significantly less in the hLESS group. The scar impact from the hLESS was significantly more favorable compared to that from the TPL. The patients in the hLESS group had a significantly better perception of their body image. CONCLUSION: Despite the reduced umbilical incision size and the absence of specialized instruments required in LESS, the hLESS revealed a similar surgical time, lower postoperative pain, and a better cosmetic outcome compared to TPL.

Biological Nicotinamide Cofactor as a Redox-Active Motif for Reversible Electrochemical Energy Storage.

Nicotinamide adenine dinucleotide (NAD+ ) is one of the most well-known redox cofactors carrying electrons. Now, it is reported that the intrinsically charged NAD+ motif can serve as an active electrode in electrochemical lithium cells. By anchoring the NAD+ motif by the anion incorporation, redox activity of the NAD+ is successfully implemented in conventional batteries, exhibiting the average voltage of 2.3 V. The operating voltage and capacity are tunable by altering the anchoring anion species without modifying the redox center itself. This work not only demonstrates the redox capability of NAD+ , but also suggests that anchoring the charged molecules with anion incorporation is a viable new approach to exploit various charged biological cofactors in rechargeable battery systems.

The Nature of Hydrated Protons on Platinum Surfaces.

The nature of hydrated protons formed at water/metal interfaces is one of the most intriguing research questions in the field of interfacial chemistry. We prepared coadsorption layers of hydrogen and water on a Pt(111) surface in ultrahigh vacuum and studied the ionization of adsorbed hydrogen atoms to H+ ions by employing a combined experimental and theoretical approach. Spectroscopic evidence obtained by mass spectrometry and reflection absorption infrared spectroscopy as well as corresponding density functional theory calculations consistently show that adsorbed hydrogen atoms ionize into multiply hydrated proton species (H5 O2+ , H7 O3+ , and H9 O4+ ) on the surface, rather than H3 O+ . Then, upon addition of a water overlayer, the metal-bound hydrated protons spontaneously evolve into three-dimensional fully hydrated proton structures through proton transfer along the water overlayer. The stability of hydrated protons on the Pt surface and their bulk dissolution behavior suggest the possibility that surface hydrated protons are a key intermediate in electrochemical interconversion between adsorbed H atoms and H+ (aq) in water electrolysis and hydrogen evolution reactions.

Study of the upper-critical dimension of the East model through the breakdown of the Stokes-Einstein relation.

We investigate the dimensional dependence of dynamical fluctuations related to dynamic heterogeneity in supercooled liquid systems using kinetically constrained models. The d-dimensional spin-facilitated East model with embedded probe particles is used as a representative super-Arrhenius glass forming system. We examine the existence of an upper critical dimension in this model by considering decoupling of transport rates through an effective fractional Stokes-Einstein relation, D∼τ-1+ω, with D and τ the diffusion constant of the probe particle and the relaxation time of the model liquid, respectively, and where ω>0 encodes the breakdown of the standard Stokes-Einstein relation. To the extent that decoupling indicates non-mean-field behavior, our simulations suggest that the East model has an upper critical dimension at least above d = 10 and argue that it may actually be infinite. This result is due to the existence of hierarchical dynamics in the East model in any finite dimension. We discuss the relevance of these results for studies of decoupling in high dimensional atomistic models.

Heterogeneous dynamics and its length scale in simple ionic liquid models: a computational study.

We numerically investigate the dynamic heterogeneity and its length scale found in coarse-grained ionic liquid model systems. In our ionic liquid model systems, cations are modeled as dimers with a positive charge, while anions are modeled as monomers with a negative charge, respectively. To study the effect of the charge distributions on the cations, two ionic liquid models with different charge distributions are used and the model with a neutral charge is also considered as a counterpart. To reveal the heterogeneous dynamics in the model systems, we examine spatial distributions of displacement and time distributions of exchange and persistence times. All the models show a significant increase of the dynamic heterogeneity as the temperature is lowered. The dynamic heterogeneity is quantified via the well-known four-point susceptibility, χ4(t), which measures the fluctuations of a time correlation function. The dynamic correlation length is calculated by fitting the dynamic structure factor, S4(k,t), with the Ornstein-Zernike form at the time scale at which the dynamic heterogeneity reaches the maximum value. The obtained time and length scales exhibit a power law relation at the low temperatures, similar to various supercooled liquid models. In particular, the charged model systems show unusual crossover behaviors which are not observed in the uncharged model system. We ascribe the crossover behavior to the enhanced cage effect caused by charges on the particles.

Excitation-energy dependence of solvation dynamics in room-temperature ionic liquids.

Influence of the excitation energy of a probe solute molecule on its solvation dynamics and emission spectrum in 1-ethyl-3-methylimidazolium hexafluorophosphate (EMI(+)PF6 (-)) is studied via molecular dynamics simulations using a coarse-grained model description. By exciting the probe at different energies, each with an extremely narrow distribution, ensuing solvent relaxation and its dynamic variance are monitored using the isoconfigurational ensemble method. Resulting Stokes shift function, S(t), indicates that long-time solvent relaxation becomes slower with the decreasing excitation energy and approaches the equilibrium correlation function, C(t), of solvent fluctuations. This suggests that the system excited at the red-edge of the spectrum observes linear response better than that at the blue-edge. A detailed analysis of nonequilibrium trajectories shows that the effect of initial configurations on variance of relaxation dynamics is mainly confined to short times; it reaches a maximum around 0.1 ≲ t ≲ 1 ps and diminishes as time further increases. The influence of the initial velocity distribution, on the other hand, tends to grow with time and dominates the long-time variations of dynamics. The emission spectrum shows the red-edge effect in accord with previous studies.

Segregated structures of ring polymer melts near the surface: a molecular dynamics simulation study.

We study structural properties of a ring polymeric melt confined in a film in comparison to a linear counterpart using molecular dynamics simulations. Local structure orderings of ring and linear polymers in the vicinity of the surface are similar to each other because the length scale of surface-monomer excluded volume interactions is smaller than the size of an ideal blob of the ring. In a long length scale, while the Silberberg hypothesis can be used to provide the physical origin of the confined linear polymer results, it no longer holds for the ring polymer case. We also present different structural properties of ring and linear polymers in a melt, including the size of polymers, the adsorbed amount, and the coordination number of a polymer. Our observation reveals that a confined ring in a melt adopts a highly segregated conformation due to a topological excluded volume repulsion, which may provide a new perspective to understand the nature of biological processes, such as territorial segregation of chromosomes in eukaryotic nuclei.

Phase separation of a Lennard-Jones fluid interacting with a long, condensed polymer chain: implications for the nuclear body formation near chromosomes.

Phase separation in a biological cell nucleus occurs in a heterogeneous environment filled with a high density of chromatins and thus it is inevitably influenced by interactions with chromatins. As a model system of nuclear body formation in a cell nucleus filled with chromatins, we simulate the phase separation of a low-density Lennard-Jones (LJ) fluid interacting with a long, condensed polymer chain. The influence of the density variation of LJ particles above and below the phase boundary and the role of attractive interactions between LJ particles and polymer segments are investigated at a fixed value of strong self-interaction between LJ particles. For a density of LJ particles above the phase boundary, phase separation occurs and a dense domain of LJ particles forms irrespective of interactions with the condensed polymer chain whereas its localization relative to the polymer chain is determined by the LJ-polymer attraction strength. Especially, in the case of moderately weak attractions, the domain forms separately from the polymer chain and subsequently associates with the polymer chain. When the density is below the phase boundary, however, the formation of a dense domain is possible only when the LJ-polymer attraction is strong enough, for which the domain grows in direct contact with the interacting polymer chain. In this work, different growth behaviors of LJ particles result from the differences in the density of LJ particles and in the LJ-polymer interaction, and this work suggests that the distinct formation of activity-dependent and activity-independent nuclear bodies (NBs) in a cell nucleus may originate from the differences in the concentrations of body-specific NB components and in their interaction with chromatins.

Slowing down of ring polymer diffusion caused by inter-ring threading.

Diffusion of long ring polymers in a melt is much slower than the reorganization of their internal structures. While direct evidence for entanglements has not been observed in the long ring polymers unlike linear polymer melts, threading between the rings is suspected to be the main reason for slowing down of ring polymer diffusion. It is, however, difficult to define the threading configuration between two rings because the rings have no chain end. In this work, evidence for threading dynamics of ring polymers is presented by using molecular dynamics simulation and applying a novel analysis method. The simulation results are analyzed in terms of the statistics of persistence and exchange times that have proved useful in studying heterogeneous dynamics of glassy systems. It is found that the threading time of ring polymer melts increases more rapidly with the degree of polymerization than that of linear polymer melts. This indicates that threaded ring polymers cannot diffuse until an unthreading event occurs, which results in the slowing down of ring polymer diffusion.

Time scale of dynamic heterogeneity in model ionic liquids and its relation to static length scale and charge distribution.

We study how dynamic heterogeneity in ionic liquids is affected by the length scale of structural relaxation and the ionic charge distribution by the molecular dynamics simulations performed on two differently charged models of ionic liquid and their uncharged counterpart. In one model of ionic liquid, the charge distribution in the cation is asymmetric, and in the other it is symmetric, while their neutral counterpart has no charge with the ions. It is found that all the models display heterogeneous dynamics, exhibiting subdiffusive dynamics and a nonexponential decay of structural relaxation. We investigate the lifetime of dynamic heterogeneity, τ(dh), in these systems by calculating the three-time correlation functions to find that τ(dh) has in general a power-law behavior with respect to the structural relaxation time, τ(α), i.e., τ(dh) ∝ τ(α)(ζ(dh)). Although the dynamics of the asymmetric-charge model is seemingly more heterogeneous than that of the symmetric-charge model, the exponent is found to be similar, ζ(dh) ≈ 1.2, for all the models studied in this work. The same scaling relation is found regardless of interactions, i.e., with or without Coulomb interaction, and it holds even when the length scale of structural relaxation is long enough to become the Fickian diffusion. This fact indicates that τ(dh) is a distinctive time scale from τ(α), and the dynamic heterogeneity is mainly affected by the short-range interaction and the molecular structure.

Dynamic heterogeneity in crossover spin facilitated model of supercooled liquid and fractional Stokes-Einstein relation.

Kinetically constrained models have gained much interest as models that assign the origins of interesting dynamic properties of supercooled liquids to dynamical facilitation mechanisms that have been revealed in many experiments and numerical simulations. In this work, we investigate the dynamic heterogeneity in the fragile-to-strong liquid via Monte Carlo method using the model that linearly interpolates between the strong liquid-like behavior and the fragile liquid-like behavior by an asymmetry parameter b. When the asymmetry parameter is sufficiently small, smooth fragile-to-strong transition is observed both in the relaxation time and the diffusion constant. Using these physical quantities, we investigate fractional Stokes-Einstein relations observed in this model. When b is fixed, the system shows constant power law exponent under the temperature change, and the exponent has the value between that of the Frederickson-Andersen model and the East model. Furthermore, we investigate the dynamic length scale of our systems and also find the crossover relation between the relaxation time. We ascribe the competition between energetically favored symmetric relaxation mechanism and entropically favored asymmetric relaxation mechanism to the fragile-to-strong crossover behavior.

Unusual size-dependence of effective interactions between collapsed polymers in crowded environments.

We investigate the influence of macromolecular crowding on interactions between collapsed polymers using computer simulations, to gain insights into biomacromolecular interactions in crowded biological environments. The effective attraction is induced between two collapsed polymers due to the macromolecular crowding, and it is found that the strength of the effective attraction decreases as the crowder size is reduced for a fixed crowder volume fraction, which is sharply contrasted with the conventional viewpoint based on the depletion attraction observed for hard-core spherical colloids. This unusual trend of size-dependence is interpreted by dividing the effective interaction into the polymer-mediated repulsion and crowder-mediated attraction. It is found that the ranges of repulsive and attractive contributions overlap significantly due to the flexible nature of polymer boundaries, resulting in partial cancellation over this range which leads to the observed size-dependence. Thus, this work suggests that the effective interactions between biomacromolecules in crowded environments may be qualitatively different from the depletion interactions predicted for hard-core spherical colloids.