Self-consistent order-N density-functional calculations for very large systems

Contact evaluation of the penta-PdPSe/graphene vdW heterojunction: tuning the Schottky barrier and optical properties

In this work, we design a van der Waals heterojunction composed of semiconducting penta-PdPSe and semi-metallic graphene (G) monolayers based on state-of-the-art theoretical calculations. Our results show that both monolayers well preserve their intrinsic features and possess an n-type near Ohmic Schottky contact with a low Schottky barrier height of 0.085 eV for the electrons at the vertical interface. The electronic band alignment suggests a negative band bending of -1.47 eV at the lateral interface, implying electrons as the major transport carriers. Moreover, the transmission gap closely mirrors the heterojunction's band gap, indicating a subtle yet profound interaction between graphene and penta-PdPSe monolayers, which leads to enhanced optical absorption coefficient reaching 106 cm-1 and strong conductivity spanning the visible to ultraviolet region. In addition, our study demonstrates the ability to modify the penta-PdPSe/G heterojunction interface, switching between p-type as well as Ohmic contacts by applying external electric fields. These properties render the penta-PdPSe/G heterojunction promising for optoelectronic applications.

Optoelectronic Readout of Single Er Adatom's Electronic States Adsorbed on the Si(100) Surface at Low Temperature (9 K)

Integrating nanoscale optoelectronic functions is vital for applications such as optical emitters, detectors, and quantum information. Lanthanide atoms show great potential in this endeavor due to their intrinsic transitions. Here, we investigate Er adatoms on Si(100)-2×1 at 9 K using a scanning tunneling microscope (STM) coupled to a tunable laser. Er adatoms display two main adsorption configurations that are optically excited between 800 and 1200 nm while the STM reads the resulting photocurrents. Our spectroscopic method reveals that various photocurrent signals stem from the bare silicon surface or Er adatoms. Additional photocurrent peaks appear as the signature of the Er adatom relaxation, triggering efficient dissociation of nearby trapped excitons. Calculations using density functional theory with spin-orbit coupling correction highlight the origin of the observed photocurrent peaks as specific 4f→4f or 4f→5d transitions. This spectroscopic technique can facilitate optoelectronic analysis of atomic and molecular assemblies by offering insight into their intrinsic quantum properties.

Asynchronous propagation of atomic force and excited electronic charge in GaAs under proton irradiation

The studies for the interaction of energetic particles with matter have greatly contributed to the exploration of material properties under irradiation conditions, such as nuclear safety, medical physics and aerospace applications. In this work, we theoretically simulate the non-adiabatic process for GaAs upon proton irradiation using time-dependent density functional theory, and find that the radial propagation of force on atoms and the excitation of electron in GaAs are non-synchronous process. We calculated the electronic stopping power on proton with the velocity of 0.1-0.6 a.u., agreement with the previous empirical results. After further analyzing the force on atoms and the population of excited electrons, we find that under proton irradiation, the electrons around the host atoms at different distances from the proton trajectories are excited almost simultaneously, especially those regions with relatively high charge density. However, the distant atoms have a significant hysteresis in force, which occurs after the surrounding electrons are excited. In addition, hysteresis in force and electron excitation behavior at different positions are closely related to the velocity of proton. This non-synchronous propagation reveals the microscopic dynamic mechanism of energy deposition into the target material under ion irradiation.

Electronic, mechanical, and thermal properties of zirconium dioxide nanotube interacting with poly lactic-co-glycolic acid and chitosan as potential agents in bone tissue engineering: insights from computational approaches

For the first time, the interaction of the Poly lactic-co-glycolic acid (PLGA) and Chitosan (CH) with Zirconium dioxide (ZrO2) nanotube was studied using density functional theory (DFT). The binding energies of the most stable configurations of PLGA and CH monomers absorbed on ZrO2 were calculated using density functional theory (DFT) methods. The obtained results indicate that both CH and PLGA monomers were chemisorbed on the surface of ZrO2. The interaction between PLGA and ZrO2 is stronger than that of CH due to its shorter equilibrium interval and higher binding energy. In addition, the electronic density of states (DOS) of the most stable configuration was computed to estimate the electronic properties of the PLGA/CH absorbed on ZrO2. Also, the molecular dynamics (MD) simulations were computed to investigate the mechanical properties of all studied compounds in individual and nanocomposite phases. MD simulation revealed that the shear and bulk moduli of PLGA, CH as well as Young's modulus increase upon interacting with the ZrO2 surface. As a result, the mechanical properties of PLGA and CH are improved by adding ZrO2 to the polymer matrix. The results showed that the elastic modulus of PLGA and CH nanocomposites decreased with increasing temperature. These findings indicate that PLGA-ZrO2 nanocomposites have mechanical and thermal properties, suggesting that they could be exploited as potential agents in biomedical sectors such as bone tissue engineering and drug delivery.Communicated by Ramaswamy H. Sarma.

Two-dimensional CsPbI3/CsPbBr3 vertical heterostructure: a potential photovoltaic absorber

First-principles methods have been employed here to calculate structural, electronic and optical properties of CsPbI3 and CsPbBr3, in monolayer and heterostructure (HS) (PbI2-CsBr (HS1), CsI-CsBr (HS2), CsI-PbBr2 (HS3) and PbI2-PbBr2 (HS4)) configurations. Imaginary frequencies are absent in phonon dispersion curves of CsPbI3 and CsPbBr3 monolayers which depicts their dynamical stability. Values of interfacial binding energies signifies stability of our simulated heterostructures. The CsPbI3 monolayer, CsPbBr3 monolayer, HS1, HS2, HS3 and HS4 possess direct bandgap of 2.19 eV, 2.73 eV, 2.41 eV, 2.11 eV, 1.88 eV and 2.07 eV, respectively. In the HS3, interface interactions between its constituent monolayers causes substantial decrease in its resultant bandgap which suggests its solar cell applications. Static dielectric constants of all simulated heterostructures are higher when compared to those of pristine monolayers which demonstrates that these heterostructures possess low charge carrier recombination rate. In optical absorption plots of materials, the plot of HS3 displayed a red shift and depicted absorption of a substantial part of visible spectrum. Later on, via Shockley-Queisser limit we have calculated solar cell parameters of all the reported structures. The calculations showed that HS2, HS3 and HS4 showcased enhanced power conversion efficiency compared to CsPbI3 and CsPbBr3 monolayers when utilized as an absorber layer in solar cells.

Enhanced Hydrogen Storage Capacity in Two-Dimensional Fullerene Networks

In contrast to isolated C60 molecular dispersion in solvents, the monolayer C60 networks synthesized by Hou et al. (Nature 2022, 606, 507-510) feature compact nanocages, serving as natural containers for hydrogen storage. The anisotropic lattice and intrinsic local strains induce delocalization of conjugated π orbitals within C60, enabling hydrogen chemisorption without an additional chemical modification. Through first-principles calculations and molecular dynamics simulations, we reveal the correspondence between chemisorption sites and orbital distributions, determining the orientation of polyhedrons formed by physiosorbed hydrogen molecules. The combination of chemisorption and physisorption processes significantly enhances hydrogen storage capacity in monolayer C60 networks while maintaining the thermodynamic stability of the nanocage structures. Numerical results indicate a maximum internal hydrogen pressure exceeding 116 GPa at room temperature and atmospheric pressure. These findings suggest that monolayer C60 networks are promising solid-state candidates for highly efficient hydrogen storage.

The influence of twist angle on the electronic and phononic band of 2D twisted bilayer SiC

Silicon carbide has a planar two-dimensional structure; therefore it is a potential material for constructing twisted bilayer systems for applications. In this study, DFT calculations were performed on four models with different twist angles. We chose angles of 21.8°, 17.9°, 13.2°, and 5.1° to estimate the dependence of the electronic and phononic properties on the twist angle. The results show that the band gap of bilayer SiC can be changed proportionally by changing the twist angle. However, there are only small variations in the band gaps, with an increment of 0.24 eV by changing the twist angle from 5.1° to 21.8°. At four considered twist angles, the band gaps decrease significantly when fixing the structure of each layer and pressing the separation distance down to 3.5 Å, 3.0 Å, 2.7 Å, and 2.5 Å. A noteworthy point is that the pressing also makes the band linearly smaller at a certain rate regardless of the twist angles. Meanwhile, the phonon bands are not affected by the value of the twist angle. The optical bands are between 900 cm-1 and 1100 cm-1 and the acoustic bands are between 0 cm-1 and 650 cm-1 at four twist angles.

Protein Sequencing with Artificial Intelligence: Machine Learning Integrated Phosphorene Nanoslit

Achieving high throughput protein sequencing at single molecule resolution remains a daunting challenge. Herein, relying on a solid-state 2D phosphorene nanoslit device, an extraordinary biosensor to rapidly identify the key signatures of all twenty amino acids using an interpretable machine learning (ML) model is reported. The XGBoost regression algorithm allows the determination of the transmission function of all twenty amino acids with high accuracy. The resultant ML and DFT studies reveal that it is possible to identify individual amino acids through transmission and current signals readouts with high sensitivity and selectivity. Moreover, we thoroughly compared our results to those from graphene nanoslit and found that the phosphorene nanoslit device can be an ideal candidate for protein sequencing up to a 20-fold increase in transmission sensitivity. The present study facilitates high throughput screening of all twenty amino acids and can be further extended to other biomolecules for disease diagnosis and therapeutic decision making.

Ferromagnetic half-metal with high Curie temperature in Cr P nanoribbons: good material for spintronic applications

In this work, the stability, and electronic, magnetic, and transport characteristics of chromium phosphorus nanoribbons (CrPNRs) have been investigated. The results, obtained from the non-equilibrium Green's function and density functional theory, indicate that the nanoribbon is stable in terms of binding energies as well as dynamically. The calculated electronic structure shows that this nanoribbon has an indirect band gap of about 1.67 eV for the spin-down channel and is metallic for the spin-up channel. The metallicity of the spin-up channel originates from the P-3p orbitals and the magnetic properties are due to the Cr-3d orbitals. The obtained transport properties indicate the value of the current for the spin-up state is about 50 μA. The negative differential resistance (NDR) phenomenon and also a 100% spin filtering effect are seen between voltages of 0.4 and 0.5 V. The results showed that CrPNRs have a high Curie temperature of more than 690 K, indicating that this nanoribbon is a useful ferromagnetic material for nanoelectronic devices and spintronic applications at ambient temperature.

Revealing the reversible solid-state electrochemistry of lithium-containing conjugated oximates for organic batteries

In the rising advent of organic Li-ion positive electrode materials with increased energy content, chemistries with high redox potential and intrinsic oxidation stability remain a challenge. Here, we report the solid-phase reversible electrochemistry of the oximate organic redox functionality. The disclosed oximate chemistries, including cyclic, acyclic, aliphatic, and tetra-functional stereotypes, uncover the complex interplay between the molecular structure and the electroactivity. Among the exotic features, the most appealing one is the reversible electrochemical polymerization accompanying the charge storage process in solid phase, through intermolecular azodioxy bond coupling. The best-performing oximate delivers a high reversible capacity of 350 mAh g^-1 at an average potential of 3.0 versus Li⁺/Li⁰, attaining 1 kWh kg^-1 specific energy content at the material level metric. This work ascertains a strong link between electrochemistry, organic chemistry, and battery science by emphasizing on how different phases, mechanisms, and performances can be accessed using a single chemical functionality.

Modular implementation of the linear- and cubic-scaling orbital minimization methods in electronic structure codes using atomic orbitals

We present a code modularization approach to design efficient and massively parallel cubic- and linear-scaling solvers for electronic structure calculations using atomic orbitals. The modular implementation of the orbital minimization method, in which linear algebra and parallelization issues are handled via external libraries, is demonstrated in the SIESTA code. The distributed block compressed sparse row (DBCSR) and scalable linear algebra package (ScaLAPACK) libraries are used for algebraic operations with sparse and dense matrices, respectively. The MatrixSwitch and libOMM libraries, recently developed within the Electronic Structure Library, facilitate switching between different matrix formats and implement the energy minimization. We show results comparing the performance of several cubic-scaling algorithms, and also demonstrate the parallel performance of the linear-scaling solvers, and their supremacy over the cubic-scaling solvers for insulating systems with sizes of several hundreds of atoms.

Possible boron-rich amorphous silicon borides from ab initio simulations

CONTEXT

By means of ab initio molecular dynamics simulations, possible boron-rich amorphous silicon borides (B_nSi_1-n, 0.5 ≤ n ≤ 0.95) are generated and their microstructure, electrical properties and mechanical characters are scrutinized in details. As expected, the mean coordination number of each species increases progressively and more closed packed structures form with increasing B concentration. In all amorphous models, pentagonal pyramid-like configurations are observed and some of which lead to the development of B₁₂ and B₁₁Si icosahedrons. It should be noted that the B₁₁Si icosahedron does not form in any crystalline silicon borides. Due to the affinity of B atoms to form cage-like clusters, phase separations (Si:B) are perceived in the most models. All simulated amorphous configurations are a semiconducting material on the basis of GGA+U calculations. The bulk modulus of the computer-generated amorphous compounds is in the range of 90 GPa to 182 GPa. As predictable, the Vickers hardness increases with increasing B content and reaches values of 25-33 GPa at 95% B concentration. Due to their electrical and mechanical properties, these materials might offer some practical applications in semiconductor technologies.

METHOD

The density functional theory (DFT) based ab initio molecular dynamics (AIMD) simulations were used to generate B-rich amorphous configurations.

High-Capacity Ion Batteries Based on Ti2C MXene and Borophene First Principles Calculations

In this paper, we report an ab initio study of a composite material based on Ti2C and borophene B12 as an anode material for magnesium-ion batteries. The adsorption energy of Mg, specific capacitance, electrical conductivity, diffusion barriers, and open-circuit voltage for composite materials are calculated as functions of Mg concentration. It is found that the use of Ti2C as a substrate for borophene B12 is energetically favorable; the binding energy of Ti2C with borophene is −1.87 eV/atom. The translation vectors of Ti2C and borophene B12 differ by no more than 4% for in the X direction, and no more than 0.5% in the Y direction. The adsorption energy of Mg significantly exceeds the cohesive energy for bulk Mg. The energy barrier for the diffusion of Mg on the surface of borophene B12 is ~262 meV. When the composite surface is completely covered with Mg ions, the specific capacity is 662.6 mAh g−1 at an average open-circuit voltage of 0.55 V (relative to Mg/Mg+). The effect of reducing the resistance of borophene B12 upon its binding to Ti2C is established. The resulting electrical conductivity of the composite Ti16C8B40 is 3.7 × 105 S/m, which is three times higher than the electrical conductivity of graphite. Thus, a composite material based on Ti2C and borophene B12 is a promising anode material for magnesium-ion batteries.

Influences of point defects on electron transport of two-dimensional gep semiconductor device

The quantum transport properties of defective two-dimensional (2D) GeP semiconductor nanodevice consisting of typical point defects, such as antisite defect, substitutional defect, and Schottky defect, have been studied by using density functional theory combined with non-equilibrium Green's function calculation. The antisite defect has indistinctive influences on electron transport. However, both substitutional and Schottky defect have introduced promising defect state at the Fermi level, indicating the possibility of improvement on the carrier transport. Our quantitative quantum transport calculations ofI-V_bbehavior have revealed that the electrical characters are enhanced. Moreover, the P atom vacancy could induce significant negative differential resistance phenomenon, and the physical mechanism is unveiled by detailed analysis. The transfer characteristic properties could be prominently improved by substitutional defect and vacancy defect. Most importantly, we have proposed a computational design of GeP-based electronic device with improved electrical performance by introducing vacancy defect. Our findings could be helpful to the practical application of novel 2D GeP semiconductor nanodevice in future.

A Step toward Amino Acid-Labeled DNA Sequencing: Boosting Transmission Sensitivity of Graphene Nanogap

Existing obstacles in next-generation DNA sequencing techniques, for instance, high noise, high translocation speed, and configurational fluctuations, call for approaches capable of reaching the goal and accelerating the process of personalized medicine development. The labeling nucleotide approach has the potential to overcome these barriers and boost the recognition sensitivity of a solid-state nanodevice. In this theoretical report, the first-principles density functional theory calculations have been employed to study the role of three different labels, tyrosine (Tyr), aspartic acid (Asp), and arginine (Arg), for labeling DNA nucleotides and study their effect in rapid and controlled DNA sequencing at atomic resolution. Remarkable differences in interaction energy values are noticed in all three cases of differently labeled nucleotides. The zero-bias transmission spectra confirm that proposed labels have the ability to detect the individual nucleotide, amplifying the tunneling current sensitivity by several orders of magnitude. The current-voltage characteristics of Arg-labeled nucleotides are found to be promising for single nucleotide recognition even at a very low bias voltage of 0.1 V.

Towards a graphene semi/hybrid-nanogap: a new architecture for ultrafast DNA sequencing

The tremendous upsurge in the research of next-generation sequencing (NGS) methods has broadly been driven by the rise of the wonder material graphene and continues to dominate the futuristic approaches for fast and accurate DNA sequencing. The success of graphene has also triggered the search for many new potential NGS methods capable of ultrafast, reliable, and controlled DNA sequencing. The present study delves into the potential of a new NGS architecture utilizing graphene, namely, a 'semi/hybrid-nanogap' for the identification of DNA nucleobases with single-base resolution. In the framework of first-principles density functional theory methods, we have calculated the transmission function and current-voltage (I-V) characteristics which are of particular significance for DNA sequencing applications. It is noted that the interaction energy values are significantly reduced compared to the previously reported graphene nanodevices, which can lead to a controlled translocation during experimental measurements. Based on the transmission function, each nucleobase can be identified with pertinent sensitivity. It is noticed that the use of highly conductive nucleobase analogs can facilitate improved single nucleobase sensing by increasing the transmission sensitivity. Therefore, we believe that the present study opens up promising frontiers for sequencing applications.

Ab Initio Investigation of the Hydrogen Interaction on Two Dimensional Silicon Carbide

A series of density functional theory calculations were performed to understand the bonding and interaction of hydrogen adsorption on two-dimensional silicon carbide obtained from molecular dynamics simulation. The converged energy results pointed out that the H atom can sufficiently bond to 2D SiC at the top sites (atop Si and C), of which the most stable adsorption site is T_Si. The vibrational properties along with the zero-point energy were incorporated into the energy calculations to further understand the phonon effect of the adsorbed H. Most of the 2D SiC structure deformations caused by the H atoms were found at the adsorbent atom along the vertical axis. For the first time, five SiC defect formations, including the quadrilateral-octagon linear defect (8-4), the silicon interstitial defect, the divacancy (4-10-4) defect, the divacancy (8-4-4-8) defect, and the divacancy (4-8-8-4) defect, were investigated and compared with previous 2D defect studies. The linear defect (8-4) has the lowest formation energy and is most likely to be formed for SiC materials. Furthermore, hydrogen atoms adsorb more readily on the defect surface than on the pristine SiC surface.

Single-step extraction of small-diameter single-walled carbon nanotubes in the presence of riboflavin

We propose a novel approach to disperse and extract small-diameter single-walled carbon nanotubes (SWCNTs) using an aqueous solution of riboflavin and Sephacryl gel. The extraction of small-diameter semiconducting SWCNTs was observed, regardless of the initial diameter distribution of the SWCNTs. Dispersion of SWCNTs occurs due to the adsorption of π-conjugated isoalloxazine moieties on the surface of small-diameter nanotubes and interactions between hydroxy groups of ribityl chains with water. During the SWCNT extraction, specific adsorption of riboflavin to SWCNTs leads to the minimization of interactions between the SWCNTs and gel media. Our experimental findings are supported by ab initio calculations demonstrating the impact of the riboflavin wrapping pattern around the SWCNTs on their interaction with the allyl dextran gel.

Thermal Treatment Impact on the Mechanical Properties of Mg3Si2O5(OH)4 Nanoscrolls

A group of phyllosilicate nanoscrolls conjoins several hydrosilicate layered compounds with a size mismatch between octahedral and tetrahedral sheets. Among them, synthetic Mg₃Si₂O₅(OH)₄ chrysotile nanoscrolls (obtained via the hydrothermal method) possess high thermal stability and mechanical properties, making them prospective composite materials fillers. However, accurate determination of these nano-objects with Young's modulus remains challenging. Here, we report on a study of the mechanical properties evolution of individual synthetic phyllosilicate nanoscrolls after a series of heat treatments, observed with an atomic force microscopy and calculated using the density functional theory. It appears that the Young's modulus, as well as shear deformation's contribution to the nanoscrolls mechanical behavior, can be controlled by heat treatment. The main reason for this is the heat-induced formation of covalent bonding between the adjacent layers, which complicate the shear deformation.

A theoretical study of new polar and magnetic double perovskites for photovoltaic applications

Searching for novel functional materials has attracted significant interest for the breakthrough in photovoltaics to tackle the prevalent energy crisis. Through density functional theory calculations, we evaluate the structural, electronic, magnetic, and optical properties of new double perovskites Sn₂MnTaO₆ and Sn₂FeTaO₆ for potential photovoltaic applications. Our structural optimizations reveal a non-centrosymmetric distorted triclinic structure for the compounds. Using total energy calculations, antiferromagnetic and ferromagnetic orderings are predicted as the magnetic ground states for Sn₂MnTaO₆ and Sn₂FeTaO₆, respectively. The empty d orbitals of Ta⁵⁺-3d⁰ and partially filled d orbitals of Mn/Fe are the origins of ferroelectricity and magnetism in these double perovskites resulting in the potential multiferroicity. The studied double perovskites have semiconducting nature and possess narrow band gaps of approximately 1 eV. The absorption coefficient (α) calculations showed that the value of α in the visible region is in the order of 10⁵ cm^-1. The structural stability, suitable band gap, and high absorption coefficient values of proposed compounds suggest they could be good candidates for photovoltaic applications.

Electronic Band Gap Tuning and Calculations of Mechanical Strength and Deformation Potential by Applying Uniaxial Strain on MX2 (M = Cr, Mo, W and X = S, Se) Monolayers and Nanoribbons

Two-dimensional (2D) transition-metal dichalcogenides (TMDs) are new crystalline materials with exotic electronic, mechanical, and optical properties. Due to their inherent exceptional mechanical strength, these 2D materials provide us the best platform for strain engineering. In this study, we have performed first-principles calculations to study the effect of uniaxial strains on the electronic, magnetic, and mechanical properties of transition-metal dichalcogenides (TMDs) MX₂ (where M = Cr, Mo, W and X = S, Se), monolayers (2D), and armchair and zigzag nanoribbons (1D). For the mechanical strength, we determined the tensile strength (σ) and Young's modulus (Y) and observed that σ and Y are higher in monolayers (most in WS₂ML) as compared to nanoribbons where monolayers resist tension up to 25-28% strain while nanoribbons (armchair and zigzag) can be only up to 5-10%. Deformation potential (Δ _p ) in the linear regime near the equilibrium position(ϵ < 2%) has also been calculated, and its effect on monolayers is observed less as compared to nanoribbons. In addition, unstrained nonmagnetic monolayers are direct band gap semiconductors (D) which changed to indirect band gap semiconductors (I) with the application of strain. Ferromagnetic states of metallic zigzag nanoribbons (including up spin channel of 7-CrS₂NR and 7-CrSe₂NR) are greatly affected by strain and show half-metal-like behavior in different strain range. The magnetic moment (μ) that is predominantly observed in zigzag nanoribbons is 2 times higher than that of other nanoribbons. This magnetism in nanoribbons is mostly caused by transition-metal atoms (M = Cr, Mo, W). Thus, our study suggests that strain engineering is the best approach to modify or control the structural, electronic, magnetic, and mechanical properties of the TMD monolayer and nanoribbons which, therefore, open their potential applications in spintronics, photovoltaic cells, and tunneling field-effect transistors.

Edges in bilayered h-BN: insights into the atomic structure

This study is devoted to the study of the edges of bilayered h-BN, whose atomic structure was previously generally unknown. It is shown that the edges tend to connect regardless of the edge cut. A defectless connection can be expected only in the case of a zigzag edge, while in other cases a series of tetragonal and octagonal defects will be formed. This result was obtained by carrying out an analogy between the edge of bilayered h-BN and the interface of monolayer h-BN. Information on the structure and energetics of closed edges allowed us to predict the shape of holes in h-BN, which agreed with the reference experimental data. Finally, it is shown that the closed edges do not create electronic states in the band gap, thus not changing the dielectricity of h-BN.

Identification of DNA nucleotides by conductance and tunnelling current variation through borophene nanogaps

Rapid and inexpensive DNA sequencing is critical to biomedical research and healthcare for the accomplishment of personalized medicine. Solid-state nanopores and nanogaps have marshalled themselves in the fascinating paradigm of nano-research since the advent of its application in DNA sequencing by analyzing the quantum conductance and electric current signals. In this study, the feasibility of the considered borophene nanogaps for DNA sequencing purposes via the electronic tunnelling current approach was investigated by utilizing combined density functional theory with non-equilibrium Green's function (DFT-NEGF) techniques. The interaction energy (E_i) and the charge density difference (CDD) plots exploit the charge modulation around the nanogap edges due to the presence of each nucleotide. Our results revealed a distinct variation in the tunnelling conductance, as a characteristic fingerprint of each nucleotide at the Fermi level. The calculated tunnelling current variation across the nanogap under an applied bias voltage was also significant due to the effective coupling of nucleotides with the electrode edges. The current was in the picoampere (pA) range, which was fairly higher than the electrical background noise and also experimentally detectable by the canning tunnelling microscopy (STM) technique. Our findings demonstrated that in the borophene nanopore vs. nanogap scenario, the nanogap has several advantages and is a more promising nanobiosensor. Moreover, we also compared our results with various previous experimental and theoretical reports on nanogaps as well as nanopores for gaining better insights.

Conductance and tunnelling current characteristics for individual identification of synthetic nucleic acids with a graphene device

Based on combined density functional theory and non-equilibrium Green's function quantum transport studies, in the present work we have demonstrated the quantum interference (QI) effect on the transverse conductance of Hachimoji (synthetic) nucleic acids when placed between the oxygen-terminated zigzag graphene nanoribbon (O-ZGNR) nanoelectrodes. We theorize that the QI effect could be well preserved in π-π coupling between a target nucleobase molecule and the carbon-based nanoelectrodes. Our study indicates that the QI effect, such as anti-resonance or Fano-resonance, affects the variation of transverse conductance depending on the nucleobase conformation. Furthermore, a variation of up to 2-5 orders of magnitude is observed in the conductance upon rotation for all the nucleobases. The current-voltage (I-V) characteristics results suggest a distinct variation in the electronic tunnelling current across the proposed nanogap device for all five nucleobases with the applied bias voltage ranges from 0.1-1.0 V. The different rotation angles keep the distinct feature of the nucleobases in both transverse conductance and tunnelling current features. Both features could be utilized in an accurate synthetic DNA sequencing device.

Pyrene Substituted Phthalonitrile Derivative As a Fluorescent Sensor For Detection of Fe3+ Ions in Solutions

In this current study, the novel bis[4,5-(pyrene-2-yl)-3,6-(hexyloxy)] phthalonitrile (SPN) fluorophore has been successfully synthesized. Structural characterization of this novel compound was performed by different spectroscopic methods such as FT-IR, MALDI-TOF, ¹H-NMR, ¹³C-NMR and elemental analyses as well. In addition, the photophysical properties were determined using UV-vis absorption, steady-state fluorescence, time-resolved fluorescence spectroscopic methods and quantum chemical calculations. The metal sensing behavior of the SPN was determined in the presence of various metals (Li⁺, Na⁺, K⁺, Mg²⁺, Ca²⁺, Ba²⁺, Mn²⁺, Fe³⁺, Cr³⁺, Co²⁺, Ni²⁺, Ag⁺, Cd²⁺, Al³⁺, Hg⁺ and Zn²⁺) using fluorescence spectroscopy. The novel pyrene based phthalonitrile (SPN) showed high sensitivity and selectivity towards Fe³⁺ ion over other examined metal ions. In order to perform the determination of Fe³⁺ ion in environmental samples, experimental conditions such as selectivity, stability, precision, sensitivity, accuracy and recovery were optimized. Also, the complex stoichiometry of the novel pyrene based phthalonitrile (SPN) and Fe³⁺ ions was determined by a Job's plot. The compound was also studied via density functional theory calculations revealing the interaction mechanism of the molecule with Fe³⁺ ions.

Toward a QUBO-Based Density Matrix Electronic Structure Method

Density matrix electronic structure theory is used in many quantum chemistry methods to "alleviate" the computational cost that arises from directly using wave functions. Although density matrix based methods are computationally more efficient than wave function based methods, significant computational effort is involved. Because the Schrödinger equation needs to be solved as an eigenvalue problem, the time-to-solution scales cubically with the system size in mean-field type approaches such as Hartree-Fock and density functional theory and is solved as many times in order to reach charge or field self-consistency. We hereby propose and study a method to compute the density matrix by using a quadratic unconstrained binary optimization (QUBO) solver. This method could be useful to solve the problem with quantum computers and, more specifically, quantum annealers. Our proposed approach is based on a direct construction of the density matrix using a QUBO eigensolver. We explore the main parameters of the algorithm focusing on precision and efficiency. We show that, while direct construction of the density matrix using a QUBO formulation is possible, the efficiency and precision have room for improvement. Moreover, calculations performed with quantum annealing on D-Wave's new Advantage quantum computer are compared with results obtained with classical simulated annealing, further highlighting some problems of the proposed method. We also suggest alternative methods that could lead to a more efficient QUBO-based density matrix construction.

The Origin of the Thermochromic Property Changes in Doped Vanadium Dioxide

Vanadium dioxide is a promising material for novel smart window applications due to its reversible metal-insulator transition which is accompanied by a change in its optical properties. The transition temperature (TMIT) can be controlled via elemental doping, but the reduction of TMIT is generally coupled with a decrease of the optical contrast between the two phases. To better understand how the contrast is fundamentally connected to TMIT, the thermochromic properties of doped VO2 were theoretically investigated across the metal-insulator transition from first principles. Different dopants and their interaction with the VO2 host structure as well as different modes of doping were studied in detail. It was found that the transition temperature change is mainly related to the stabilization of the high-temperature metallic phase due to lattice deformations which are caused by the presence of the dopant ion. Inherent limitations to the thermochromic performance of VO2 substitutionally doped by the replacement of vanadium cations with other species were found, and alternative approaches were proposed. Specifically, a charge-neutral substitution of oxygen or an oxygen substitution in combination with interstitial doping without net charge transfer between the dopant atoms and VO2 were identified as promising avenues to ensure a low TMIT and no loss of optical contrast in vanadia-based smart window materials.

Nanovectorization of Ivermectin to avoid overdose of drugs

Ivermectin is an antiparasitic drug that results in the death of the targeted parasites using several mechanical actions. While very well supported, it can induce in rare cases, adverse effects including coma and respiratory failure in case of overdose. This problem should be solved especially in an emergency situation. For instance, the first pandemic of the 21th century was officially declared in early 2020, and while several vaccines around the worlds have been used, an effective treatment against this new strain of coronavirus, better known as SARS-CoV-2, should also be considered, especially given the massive appearance of variants. From all the tested therapies, Ivermectin showed a potential reduction of the viral portability, but sparked significant debate around the dose needed to achieve these positive results. To answer this general question, we propose, using simulations, to show that the nanovectorization of Ivermectin on BN oxide nanosheets can increase the transfer of the drug to its target and thus decrease the quantity of drug necessary to cope with the disease. This first application could help science to develop such nanocargo to avoid adverse effects.Communicated by Ramaswamy H. Sarma.

DNA sequencing based on electronic tunneling in a gold nanogap: a first-principles study

Deoxyribonucleic acid (DNA) sequencing has found wide applications in medicine including treatment of diseases, diagnosis and genetics studies. Rapid and cost-effective DNA sequencing has been achieved by measuring the transverse electronic conductance as a single-stranded DNA is driven through a nanojunction. With the aim of improving the accuracy and sensitivity of DNA sequencing, we investigate the electron transport properties of DNA nucleobases within gold nanogaps based on first-principles quantum transport simulations. Considering the fact that the DNA bases can rotate within the nanogap during measurements, different nucleobase orientations and their corresponding residence time within the nanogap are explicitly taken into account based on their energetics. This allows us to obtain an average current that can be compared directly to experimental measurements. Our results indicate that bare gold electrodes show low distinguishability among the four DNA nucleobases while the distinguishability can be substantially enhanced with sulfur atom decorated electrodes. We further optimized the size of the nanogap by maximizing the residence time of the desired orientation.

Pathak A, Novikov D, Leitus G, Kaplan-Ashiri I, Kolíbal M, Enyashin AN, Houben L, Tenne R. Nanotubes from the Misfit Layered Compound (SmS)1.19TaS2: Atomic Structure, Charge Transfer, and Electrical Properties

Misfit layered compounds (MLCs) MX-TX₂, where M, T = metal atoms and X = S, Se, or Te, and their nanotubes are of significant interest due to their rich chemistry and unique quasi-1D structure. In particular, LnX-TX₂ (Ln = rare-earth atom) constitute a relatively large family of MLCs, from which nanotubes have been synthesized. The properties of MLCs can be tuned by the chemical and structural interplay between LnX and TX₂ sublayers and alloying of each of the Ln, T, and X elements. In order to engineer them to gain desirable performance, a detailed understanding of their complex structure is indispensable. MLC nanotubes are a relative newcomer and offer new opportunities. In particular, like WS₂ nanotubes before, the confinement of the free carriers in these quasi-1D nanostructures and their chiral nature offer intriguing physical behavior. High-resolution transmission electron microscopy in conjunction with a focused ion beam are engaged to study SmS-TaS₂ nanotubes and their cross-sections at the atomic scale. The atomic resolution images distinctly reveal that Ta is in trigonal prismatic coordination with S atoms in a hexagonal structure. Furthermore, the position of the sulfur atoms in both the SmS and the TaS₂ sublattices is revealed. X-ray photoelectron spectroscopy, electron energy loss spectroscopy, and X-ray absorption spectroscopy are carried out. These analyses conclude that charge transfer from the Sm to the Ta atoms leads to filling of the Ta 5d _{z ²} level, which is confirmed by density functional theory (DFT) calculations. Transport measurements show that the nanotubes are semimetallic with resistivities in the range of 10^-4 Ω·cm at room temperature, and magnetic susceptibility measurements show a superconducting transition at 4 K.

Ab initio DFT simulation of electronic and magnetic properties of Tin+1 and FeTin clusters

We report a computational investigation of the electronic and magnetic properties of neutral Ti_n+1 and FeTi_n (n = 1-10) clusters using ab initio calculations based on density functional theory (DFT) within the generalized gradient approximation (GGA). The best structures for Ti_n+1 and FeTi_n clusters are planar for size n < 5, while from n = 5, they showed a compact three-dimensional cage structure. For the best structures of the FeTi_n clusters, the Fe atoms favor the peripheral position with the highest coordination with the neighboring Ti atoms. The evolution as a function of the size of the average binding energies (Eb/atom) and HOMO-LUMO gaps of Ti_n+1 and FeTi_n (n = 1-10) clusters are studied. The stability results show that the Ti_n+1 clusters have relatively higher stability than the FeTi_n cluster with the same size. In addition, the vertical ionization potentials and electron affinities, chemical hardness, and atomic magnetic moment of Ti_n+1 and FeTi_n (n = 1-10) clusters are also investigated.

Forces from Stochastic Density Functional Theory under Nonorthogonal Atom-Centered Basis Sets

We develop a formalism for calculating forces on the nuclei within the linear-scaling stochastic density functional theory (sDFT) in a nonorthogonal atom-centered basis set representation (Fabian et al. Wiley Interdiscip. Rev.: Comput. Mol. Sci.2019, 9, e1412, 10.1002/wcms.1412) and apply it to the Tryptophan Zipper 2 (Trp-zip2) peptide solvated in water. We use an embedded-fragment approach to reduce the statistical errors (fluctuation and systematic bias), where the entire peptide is the main fragment and the remaining 425 water molecules are grouped into small fragments. We analyze the magnitude of the statistical errors in the forces and find that the systematic bias is of the order of 0.065 eV/Å (∼1.2 × 10^–3E_h/a₀) when 120 stochastic orbitals are used, independently of system size. This magnitude of bias is sufficiently small to ensure that the bond lengths estimated by stochastic DFT (within a Langevin molecular dynamics simulation) will deviate by less than 1% from those predicted by a deterministic calculation.

Structural and molecular properties of complexes of biomolecules and metal-organic frameworks: dispersion-corrected DFT treatment

Investigation of complexes of nanostructured materials and biomolecules has attracted much attention by various researchers as it can contribute to coherent growth and extended application of nanostructures in different technologies. In this research, following a comprehensive approach, we examined the interaction between different amino acids and metal-organic frameworks (MOFs) at atomic scale using computational chemistry. For this purpose, we employed the density functional theory (DFT-D2) calculations to afford a molecular description of the interaction properties of the amino acids and MOF-5 by examining the interaction energy and the electronic structure of the amino acid/MOF complexes. We found strong interactions between the amino acids and MOF through their polar groups as well as aromatic rings in the gas phase. However, our findings were significantly different in solvent media, where water molecules prevent the amino acids from approaching the active sites of MOF, causing weak attractions between them. The evaluation of nature of interaction between the amino acids and MOF by the atoms-in-molecules (AIM) theory shows that the electrostatic attractions are the main force contributing to bond formation between the interacting entities. Furthermore, our DFT-PBE model of theory was validated against the comprehensive MP2 quantum level of theory.

Modeling of the Point Defect Migration across the AlN/GaN Interfaces-Ab Initio Study

The formation and diffusion of point defects have a detrimental impact on the functionality of devices in which a high quality AlN/GaN heterointerface is required. The present paper demonstrated the heights of the migration energy barriers of native point defects throughout the AlN/GaN heterointerface, as well as the corresponding profiles of energy bands calculated by means of density functional theory. Both neutral and charged nitrogen, gallium, and aluminium vacancies were studied, as well as their complexes with a substitutional III-group element. Three diffusion mechanisms, that is, the vacancy mediated, direct interstitial, and indirect ones, in bulk AlN and GaN crystals, as well at the AlN/GaN heterointerface, were taken into account. We showed that metal vacancies migrated across the AlN/GaN interface, overcoming a lower potential barrier than that of the nitrogen vacancy. Additionally, we demonstrated the effect of the inversion of the electric field in the presence of charged point defects VGa3− and VAl3− at the AlN/GaN heterointerface, not reported so far. Our findings contributed to the issues of structure design, quality control, and improvement of the interfacial abruptness of the AlN/GaN heterostructures.

Co-crystallization of red emitting (NH4)3Sc(SO4)3:Eu3+ microfibers: structure-luminescence relationship for promising application in optical thermometry

(NH4)3Sc(SO4)3:Eu3+ phosphor has been synthesized as rod-like microparticles by the crystallization from an aqueous solution. Its crystal structure belongs to monoclinic system, space group P21/c, Z = 4. An enantiotropic...

Detection of cadaverine and putrescine on (10,0) carbon, boron nitride and gallium nitride nanotubes: a density functional theory study

This work presents a theoretical study of the interaction between carbon nanotubes (CNT), boron nitride nanotubes and gallium nitride nanotubes with pollutant diamines cadaverine and putrescine using density functional theory (DFT) implemented using SIESTA.

Single cycloparaphenylene molecule devices: Achieving large conductance modulation via tuning radial π-conjugation

Conjugated macrocycles cycloparaphenylenes (CPPs) have unusual size-dependent electronic properties because of their unique radially π-conjugated structures. Contrary to linearly π-conjugated molecules, their highest occupied molecular orbital (HOMO)–lowest unoccupied molecular orbital (LUMO) gap shrinks as the molecular size reduces, and this feature can, in principle, be leveraged to achieve unexpected size-dependent transport properties. Here, we examine charge transport characteristics of [n]CPPs (n = 5 to 12) at the single molecule level using the scanning tunneling microscope–break junction technique. We find that the [n]CPPs have a much higher conductance than their linear oligoparaphenylene counterparts at small ring size and at the same time show a large tunneling attenuation coefficient comparable to saturated alkane series. These results show that the radially π-conjugated molecular systems can offer much larger conductance modulation range than standard linear molecules and can be a new platform for building molecular devices with highly tunable transport behaviors.

Carbyne Nanocrystal: One-Dimensional van der Waals Crystal

In terms of carbon-atom hybridization, well-established forms of carbon are the first carbon diamond with three-dimensional sp³-hybridized carbon atoms and the second carbon graphite with two-dimensional sp²-hybridized carbon atoms which have been known and utilized for millennia. Sequentially, there is the third carbon, i.e., carbyne with one-dimensional (1D) sp-hybridized carbon atoms, which would result in an allotrope of carbon. Here, we demonstrate that carbyne nanocrystals (CNCs) are 1D van der Waals crystals (1D-vdWCs) composed of 1D carbon chains with sp-hybridized carbon atoms, and van der Waals action occurs between carbon chains based on an atomic insight into 1D sp-carbon chains. CNCs are synthesized by laser ablation in liquids, and the relevant spectroscopic analyses confirm that CNCs are composed of 1D carbon chains with the alternating carbon-carbon single and triple bonds. The crystal structure of CNCs is determined by X-ray diffraction, transmission electron microscopy (TEM), including selective electron diffraction (SAED), high-resolution TEM (HRTEM), and scanning TEM (STEM) and the corresponding simulations. SAED and HRTEM images reveal the translational symmetry of CNCs, and STEM images show the specific position of the carbon chain in CNCs and the arrangement of atoms on the carbon chain. Experimental data are in good agreement with the simulations, which demonstrate that CNCs are 1D-vdWCs with a hexagonal lattice in which the 1D carbon chain has a kinked structure consisting of an alternating carbon-carbon single bond and a triple bond of eight carbon atoms in a cycle. These findings bring out an emerging era of the third carbon carbyne.

Designing new ferromagnetic double perovskites: the coexistence of polar distortion and half-metallicity

Advancing technology and growing interdisciplinary fields raise the need for new materials that simultaneously possess several significant physics quantities to meet human demands. In this research, using density functional theory, we aim to design A₂MnVO₆ (A = Ca, Ba) as new double perovskites and investigate their structural, electronic, and magnetic properties. Structural calculations based on the total energies show the optimized monoclinic and orthorhombic crystal structures for the Ca₂MnVO₆ (CMVO) and Ba₂MVO₆ (BMVO) compounds, respectively. Through performing calculations, we reveal that the Jahn-Teller effect plays an important role in polar distortions of VO₆ and elongation of MnO₆ octahedra, resulting from the V⁵⁺(3d⁰) and Mn³⁺(3d⁴:t32ge1g) electron configurations. The spin-polarized calculations predict the half-metallic ferromagnetic ground state for CMVO and BMVO with a total magnetic moment of 4.00 μ_B f.u.^-1 Our findings introduce CMVO and BMVO double perovskites as promising candidates for designing ferromagnetic polar half-metals and spintronic applications.