Density Functional Theory for Steady-State Nonequilibrium Molecular Junctions.

Abstract:

:We present a density functional theory (DFT) for steady-state nonequilibrium quantum systems such as molecular junctions under a finite bias. Based on the steady-state nonequilibrium statistics that maps nonequilibrium to an effective equilibrium, we show that ground-state DFT (GS-DFT) is not applicable in this case and two densities, the total electron density and the density of current-carrying electrons, are needed to uniquely determine the properties of the corresponding nonequilibrium system. A self-consistent mean-field approach based on two densities is then derived. The theory is implemented into SIESTA computational package and applied to study nonequilibrium electronic/transport properties of a realistic carbon-nanotube (CNT)/Benzene junction. Results obtained from our steady-state DFT (SS-DFT) are compared with those of conventional GS-DFT based transport calculations. We show that SS-DFT yields energetically more stable nonequilibrium steady state, predicts significantly lower electric current, and is able to produce correct electronic structures in local equilibrium under a limiting case.

journal_name

Sci Rep

journal_title

Scientific reports

authors

Liu S,Nurbawono A,Zhang C

doi

10.1038/srep15386

subject

Has Abstract

pub_date

2015-10-16 00:00:00

pages

15386

issn

2045-2322

pii

srep15386

journal_volume

5

pub_type

杂志文章
  • Nodulation Characterization and Proteomic Profiling of Bradyrhizobium liaoningense CCBAU05525 in Response to Water-Soluble Humic Materials.

    abstract::The lignite biodegradation procedure to produce water-soluble humic materials (WSHM) with a Penicillium stain was established by previous studies in our laboratory. This study researched the effects of WSHM on the growth of Bradyrhizobium liaoningense CCBAU05525 and its nodulation on soybean. Results showed that WSHM ...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep10836

    authors: Guo Gao T,Yuan Xu Y,Jiang F,Zhen Li B,Shui Yang J,Tao Wang E,Li Yuan H

    更新日期:2015-06-08 00:00:00

  • Switchable genome editing via genetic code expansion.

    abstract::Multiple applications of genome editing by CRISPR-Cas9 necessitate stringent regulation and Cas9 variants have accordingly been generated whose activity responds to small ligands, temperature or light. However, these approaches are often impracticable, for example in clinical therapeutic genome editing in situ or gene...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-018-28178-3

    authors: Suzuki T,Asami M,Patel SG,Luk LYP,Tsai YH,Perry ACF

    更新日期:2018-07-03 00:00:00

  • Dyschloremia is associated with failure to restore renal function in survivors with acute kidney injury: an observation retrospective study.

    abstract::Dyschloremia is common in critically ill patients. However, little is known about the effects of dyschloremia on renal function in patients with acute kidney injury (AKI) requiring continuous renal replacement therapy (CRRT). A total of 483 patients who received CRRT for AKI were selected and divided into three groups...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-020-76798-5

    authors: Kee YK,Jeon HJ,Oh J,Shin DH

    更新日期:2020-11-12 00:00:00

  • Uncovering ferroelectric polarization in tetragonal (Bi1/2K1/2)TiO3-(Bi1/2Na1/2)TiO3 single crystals.

    abstract::We report the robust ferroelectric properties of (1 - x)(Bi1/2Na1/2)TiO3-x(Bi1/2K1/2)TiO3 (x = 33%) single crystals grown by a top-seeded solution growth process under a high oxygen-pressure (0.9 MPa) atmosphere. The sample exhibit a large remanent polarization of 48 μC/cm2 and a sizeable piezoelectric strain constant...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-019-55576-y

    authors: Kitanaka Y,Noguchi Y,Miyayama M

    更新日期:2019-12-17 00:00:00

  • PI3K induces B-cell development and regulates B cell identity.

    abstract::Phosphoinositide-3 kinase (PI3K) signaling is important for the survival of numerous cell types and class IA of PI3K is specifically required for the development of B cells but not for T cell development. Here, we show that class IA PI3K-mediated signals induce the expression of the transcription factor Pax5, which pl...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-018-19460-5

    authors: Abdelrasoul H,Werner M,Setz CS,Okkenhaug K,Jumaa H

    更新日期:2018-01-22 00:00:00

  • The biological role of N-acyl-homoserine lactone-based quorum sensing (QS) in EPS production and microbial community assembly during anaerobic granulation process.

    abstract::Although N-acyl-L-homoserine lactone (AHL) based quorum sensing (QS) phenomenon has been observed in mature anaerobic granules, the biological role of AHL-based QS system in anaerobic granulation process remains unexplored. For the first time, a long-term anaerobic bioreactor was operated for 168 days to investigate t...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-018-34183-3

    authors: Ma H,Ma S,Hu H,Ding L,Ren H

    更新日期:2018-10-25 00:00:00

  • Endometrial Mesenchymal Stem/Stromal Cells Modulate the Macrophage Response to Implanted Polyamide/Gelatin Composite Mesh in Immunocompromised and Immunocompetent Mice.

    abstract::The immunomodulatory properties of human endometrial mesenchymal stem cells (eMSC) have not been well characterised. Initial studies showed that eMSC modulated the chronic inflammatory response to a non-degradable polyamide/gelatin mesh in a xenogeneic rat skin wound repair model, but the mechanism remains unclear. In...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-018-24919-6

    authors: Darzi S,Deane JA,Nold CA,Edwards SE,Gough DJ,Mukherjee S,Gurung S,Tan KS,Vashi AV,Werkmeister JA,Gargett CE

    更新日期:2018-04-26 00:00:00

  • Optical absorption in array of Ge/Al-shell nanoparticles in an Alumina matrix.

    abstract::The absorption spectra in array of Ge, Al and Ge/Al-shell nanoparticles immersed in alumina (Al2O3) matrix is calculated in framework of ab initio macroscopic dielectric model. It is demonstrated that absorption is strongly enhanced when germanium nanospheres are encapsulated by Al-shell. Two absorption peaks, appeari...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-019-56673-8

    authors: Despoja V,Basioli L,Parramon JS,Mičetić M

    更新日期:2020-01-09 00:00:00

  • Factors associated with smoking susceptibility among high school students in western Spain.

    abstract::The Expanded Susceptibility to Smoking Index (ESSI) is based on the combination of susceptibility to smoking and curiosity about smoking. The ESSI can identify young people who are at risk of starting to smoke cigarettes and related products. The objective of this study was to analyse the ESSI results and to examine f...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-021-81723-5

    authors: Santano-Mogena E,Franco-Antonio C,Chimento-Díaz S,Rico-Martín S,Cordovilla-Guardia S

    更新日期:2021-01-21 00:00:00

  • A novel technique based on in vitro oocyte injection to improve CRISPR/Cas9 gene editing in zebrafish.

    abstract::Contemporary improvements in the type II clustered regularly interspaced short palindromic repeats/CRISPR-associated protein 9 (CRISPR/Cas9) system offer a convenient way for genome editing in zebrafish. However, the low efficiencies of genome editing and germline transmission require a time-intensive and laborious sc...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep34555

    authors: Xie SL,Bian WP,Wang C,Junaid M,Zou JX,Pei DS

    更新日期:2016-09-29 00:00:00

  • Fluvoxamine stimulates oligodendrogenesis of cultured neural stem cells and attenuates inflammation and demyelination in an animal model of multiple sclerosis.

    abstract::Multiple Sclerosis (MS) require medications controlling severity of the pathology and depression, affecting more than half of the patients. In this study, the effect of antidepressant drug fluvoxamine, a selective serotonin reuptake inhibitor, was investigated in vitro and in vivo. Nanomolar concentrations of fluvoxam...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-017-04968-z

    authors: Ghareghani M,Zibara K,Sadeghi H,Dokoohaki S,Sadeghi H,Aryanpour R,Ghanbari A

    更新日期:2017-07-07 00:00:00

  • Optimizing Dynamical Network Structure for Pinning Control.

    abstract::Controlling dynamics of a network from any initial state to a final desired state has many applications in different disciplines from engineering to biology and social sciences. In this work, we optimize the network structure for pinning control. The problem is formulated as four optimization tasks: i) optimizing the ...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep24252

    authors: Orouskhani Y,Jalili M,Yu X

    更新日期:2016-04-12 00:00:00

  • Conserved-residue mutations in Wzy affect O-antigen polymerization and Wzz-mediated chain-length regulation in Pseudomonas aeruginosa PAO1.

    abstract::O antigen (O-Ag) in many bacteria is synthesized via the Wzx/Wzy-dependent pathway in which Wzy polymerizes lipid-linked O-Ag subunits to modal lengths regulated by Wzz. Characterization of 83 site-directed mutants of Wzy from Pseudomonas aeruginosa PAO1 (WzyPa) in topologically-mapped periplasmic (PL) and cytoplasmic...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep03441

    authors: Islam ST,Huszczynski SM,Nugent T,Gold AC,Lam JS

    更新日期:2013-12-06 00:00:00

  • Renal Prognosis and Related Risk Factors for Henoch-Schönlein Purpura Nephritis: A Chinese Adult Patient Cohort.

    abstract::This study investigated the clinicopathological characteristics of Henoch-Schönlein purpura nephritis (HSPN) in Chinese adult patients and analyzed the renal outcomes and prognostic risk factors for progression to end-stage renal disease (ESRD). Adult patients who had biopsy-proven HSPN were studied. Their clinicopath...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-018-23638-2

    authors: Huang X,Wu X,Le W,Hao Y,Wu J,Zeng C,Liu Z,Tang Z

    更新日期:2018-04-03 00:00:00

  • HDAC4 and 5 repression of TBX5 is relieved by protein kinase D1.

    abstract::TBX5 is a T-box family transcription factor that regulates heart and forelimb development in vertebrates and functional deficiencies in this protein result in Holt-Oram syndrome. Recently, we have shown that acetylation of TBX5 potentiates its activity and is important for heart and limb development. Here we report th...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-019-54312-w

    authors: Ghosh TK,Aparicio-Sánchez JJ,Buxton S,Brook JD

    更新日期:2019-11-29 00:00:00

  • Structural basis of small RNA hydrolysis by oligoribonuclease (CpsORN) from Colwellia psychrerythraea strain 34H.

    abstract::Cells regulate their intracellular mRNA levels by using specific ribonucleases. Oligoribonuclease (ORN) is a 3'-5' exoribonuclease for small RNA molecules, important in RNA degradation and re-utilisation. However, there is no structural information on the ligand-binding form of ORNs. In this study, the crystal structu...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-019-39641-0

    authors: Lee CW,Park SH,Jeong CS,Cha SS,Park H,Lee JH

    更新日期:2019-02-25 00:00:00

  • Network recovery based on system crash early warning in a cascading failure model.

    abstract::This paper investigates the possibility of saving a network that is predicted to have a cascading failure that will eventually lead to a total collapse. We model cascading failures using the recently proposed KQ model. Then predict an impending total collapse by monitoring critical slowing down indicators and subseque...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-018-25591-6

    authors: Zhou D,Elmokashfi A

    更新日期:2018-05-10 00:00:00

  • Characterising the interspecific variations and convergence of gut microbiota in Anseriformes herbivores at wintering areas.

    abstract::Microorganisms in vertebrate guts have been recognized as important symbionts influencing host life. However, it remains unclear about the gut microbiota in long-distance migratory Anseriformes herbivores, which could be functionally important for these wetland-dependent animals. We collected faeces of the greater whi...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep32655

    authors: Yang Y,Deng Y,Cao L

    更新日期:2016-09-07 00:00:00

  • Low energy cost for cultured pearl formation in grafted chimeric Pinctada margaritifera.

    abstract::The pearl oyster is one of the rare animal models that support two distinct genomes, through the surgical graft process operated for culture pearl production. This grafted organism is assimilated to a chimera whose physiological functioning remains poorly known. The question of the energy expenditure comparison betwee...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-018-25360-5

    authors: Le Moullac G,Soyez C,Ky CL

    更新日期:2018-05-14 00:00:00

  • Maternal imprinting on cognition markers of wild type and transgenic Alzheimer's disease model mice.

    abstract::The risk of suffering from Alzheimer's disease (AD) is higher in individuals from AD-affected mothers. The purpose of this investigation was to study whether maternal transmission might produce AD-related alterations in progenies of mice that do not have any genotypic alteration. We used cognitively-intact mothers har...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-018-24710-7

    authors: Zamarbide M,Gil-Bea FJ,Bannenberg P,Martínez-Pinilla E,Sandoval J,Franco R,Pérez-Mediavilla A

    更新日期:2018-04-24 00:00:00

  • The diagnostic value of human epididymis protein 4 for endometrial cancer is moderate.

    abstract::Human epididymis protein 4 (HE4) has been used as a biomarker of endometrial cancer (EC) in clinical practice. However, there remains a lack of systemic research on the critical values of HE4 for diagnosing different clinical stages and pathological types of EC. This study investigated the accuracy of human epididymis...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-020-79960-1

    authors: Liu J,Han L,Jiao Z

    更新日期:2021-01-12 00:00:00

  • Qtlizer: comprehensive QTL annotation of GWAS results.

    abstract::Exploration of genetic variant-to-gene relationships by quantitative trait loci such as expression QTLs is a frequently used tool in genome-wide association studies. However, the wide range of public QTL databases and the lack of batch annotation features complicate a comprehensive annotation of GWAS results. In this ...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-020-75770-7

    authors: Munz M,Wohlers I,Simon E,Reinberger T,Busch H,Schaefer AS,Erdmann J

    更新日期:2020-11-24 00:00:00

  • Molecular characterization of pyridoxine 5'-phosphate oxidase and its pathogenic forms associated with neonatal epileptic encephalopathy.

    abstract::Defects of vitamin B6 metabolism are responsible for severe neurological disorders, such as pyridoxamine 5'-phosphate oxidase deficiency (PNPOD; OMIM: 610090), an autosomal recessive inborn error of metabolism that usually manifests with neonatal-onset severe seizures and subsequent encephalopathy. At present, 27 path...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-020-70598-7

    authors: Barile A,Nogués I,di Salvo ML,Bunik V,Contestabile R,Tramonti A

    更新日期:2020-08-12 00:00:00

  • We should be using nonlinear indices when relating heart-rate dynamics to cognition and mood.

    abstract::Both heart rate (HR) and brain functioning involve the integrated output of a multitude of regulatory mechanisms, that are not quantified adequately by linear approximations such as means and standard deviations. It was therefore considered whether non-linear measures of HR complexity are more strongly associated with...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep16619

    authors: Young H,Benton D

    更新日期:2015-11-13 00:00:00

  • The aryl hydrocarbon receptor promotes aging phenotypes across species.

    abstract::The ubiquitously expressed aryl hydrocarbon receptor (AhR) induces drug metabolizing enzymes as well as regulators of cell growth, differentiation and apoptosis. Certain AhR ligands promote atherosclerosis, an age-associated vascular disease. Therefore, we investigated the role of AhR in vascular functionality and agi...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep19618

    authors: Eckers A,Jakob S,Heiss C,Haarmann-Stemmann T,Goy C,Brinkmann V,Cortese-Krott MM,Sansone R,Esser C,Ale-Agha N,Altschmied J,Ventura N,Haendeler J

    更新日期:2016-01-21 00:00:00

  • Uncovering the Relationship between Sulphation Patterns and Conformation of Iduronic Acid in Heparan Sulphate.

    abstract::The L-iduronic acid (IdoA) residue is a critically important structural component in heparan sulphate polysaccharide for the biological functions. The pyranose ring of IdoA is present in (1)C4-chair, (2)SO-skew boat, and less frequently, in (4)C1-chair conformations. Here, we analyzed the conformation of IdoA residue ...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep29602

    authors: Hsieh PH,Thieker DF,Guerrini M,Woods RJ,Liu J

    更新日期:2016-07-14 00:00:00

  • Engineered 3D-printed artificial axons.

    abstract::Myelination is critical for transduction of neuronal signals, neuron survival and normal function of the nervous system. Myelin disorders account for many debilitating neurological diseases such as multiple sclerosis and leukodystrophies. The lack of experimental models and tools to observe and manipulate this process...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-017-18744-6

    authors: Espinosa-Hoyos D,Jagielska A,Homan KA,Du H,Busbee T,Anderson DG,Fang NX,Lewis JA,Van Vliet KJ

    更新日期:2018-01-11 00:00:00

  • A role of the Nse4 kleisin and Nse1/Nse3 KITE subunits in the ATPase cycle of SMC5/6.

    abstract::The SMC (Structural Maintenance of Chromosomes) complexes are composed of SMC dimers, kleisin and kleisin-interacting (HAWK or KITE) subunits. Mutual interactions of these subunits constitute the basal architecture of the SMC complexes. In addition, binding of ATP molecules to the SMC subunits and their hydrolysis dri...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-020-66647-w

    authors: Vondrova L,Kolesar P,Adamus M,Nociar M,Oliver AW,Palecek JJ

    更新日期:2020-06-16 00:00:00

  • Computational holographic Maxwellian near-eye display with an expanded eyebox.

    abstract::The Maxwellian near-eye displays have attracted growing interest in various applications. By using a confined pupil, a Maxwellian display presents an all-in-focus image to the viewer where the image formed on the retina is independent of the optical power of the eye. Despite being a promising technique, current Maxwel...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-019-55346-w

    authors: Chang C,Cui W,Park J,Gao L

    更新日期:2019-12-10 00:00:00

  • Dense Quantum Measurement Theory.

    abstract::Quantum measurement is a fundamental cornerstone of experimental quantum computations. The main issues in current quantum measurement strategies are the high number of measurement rounds to determine a global optimal measurement output and the low success probability of finding a global optimal measurement output. Eac...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-019-43250-2

    authors: Gyongyosi L,Imre S

    更新日期:2019-05-01 00:00:00