cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Predicting the changes in neutralizing antibody interaction with G protein derived from Bangladesh isolates of Nipah virus: molecular dynamics based approach
Creators: name: Dsouza, Norine
name: C, Selvaa Kumar
Publisher: name: Taylor & Francis
Year: 2023
Subjects: subject: Biophysics
subject: Biochemistry
subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Physiology
subject: Chemical Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Cancer
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: Virology

description: The infectious Nipah virus (NiV) is categorized into NiV-M (Malaysia) and NiV-B (Bangladesh) groups based on its genome comparison, pathogenicity, and mortality rate. The development of therapeutic molecules has used NiV-M-derived data in multiple studies than NiV-B. In continuation with this, the protein level investigation is also less explored to understand the interaction with therapeutic neutralizing antibodies for NiV-B. So, this study focuses on understanding the impact of NiV-B-specific mutations on the interaction of therapeutic neutralizing antibodies with the G protein. The population-based comparative analysis of NiV-B G protein sequences with NiV-M sequence identified twenty-six mutations. These predominantly polar mutations were then used to model the mutant protein (G_MT). In a comparative study, the G protein G_MT and reference protein G_WT (Malaysian origin) were subjected to a protein docking with neutralizing human monoclonal antibody HENV26. The binding affinity and the free binding energy of the glycoprotein in complex with G-WT and G_MT were calculated using PRODIGY and MM/PBSA tools respectively. Based on the PRODIGY report, G-WT showed stronger binding (-13.8 kcal/mol) compared to that of the G_MT (-9.0 kcal/mol) with the HENV26 antibody. The stability of the complexes was evaluated using MM/PBSA which showed higher binding energy with HENV26 for G_WT (-75.11 kcal/mol) in contrast to G_MT (-41.66 kcal/mol). The results indicate that the mutant G protein has a reduced ability to bind to neutralizing antibodies, resulting in a decreased effectiveness against strains carrying these mutations. Communicated by Ramaswamy H. Sarma
Additional file 1 of Healthcare professionals’ perceptions on barriers and facilitators to DMARD use in rheumatoid arthritis
Creators: name: Voshaar, M. J. H.
name: van den Bemt, B. J. F.
name: van de Laar, M. A. F. J.
name: van Dulmen, A. M.
name: Vriezekolk, J. E.
Publisher: name: figshare
Year: 2022
Subjects: subject: Medicine
subject: Pharmacology
subject: Ecology
subject: FOS: Biological sciences
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: 111714 Mental Health
subject: FOS: Health sciences

description: Additional file 1.
Polar InGaN/GaN quantum wells: Revisiting the impact of carrier localization on the green gap problem
Creators: name: Tanner, Daniel S. P.
name: Dawson, Philip
name: Kappers, Menno J.
name: Oliver, Rachel A.
name: Schulz, Stefan
Publisher: name: arXiv
Year: 2020
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: We present a detailed theoretical analysis of the electronic and optical properties of c-plane InGaN/GaN quantum well structures with In contents ranging from 5% to 25%. Special attention is paid to the relevance of alloy induced carrier localization effects to the green gap problem. Studying the localization length and electron-hole overlaps at low and elevated temperatures, we find alloy-induced localization effects are crucial for the accurate description of InGaN quantum wells across the range of In content studied. However, our calculations show very little change in the localization effects when moving from the blue to the green spectral regime; i.e. when the internal quantum efficiency and wall plug efficiencies reduce sharply, for instance, the in-plane carrier separation due to alloy induced localization effects change weakly. We conclude that other effects, such as increased defect densities, are more likely to be the main reason for the green gap problem. This conclusion is further supported by our finding that the electron localization length is large, when compared to that of the holes, and changes little in the In composition range of interest for the green gap problem. Thus electrons may become increasingly susceptible to an increased (point) defect density in green emitters and as a consequence the nonradiative recombination rate may increase.
description: 17 pages, 9 figures
Multifractal model of asset returns with leverage effect
Creators: name: Eisler, Zoltan
name: Kertesz, Janos
Publisher: name: arXiv
Year: 2004
Subjects: subject: Other Condensed Matter (cond-mat.other)
subject: Statistical Mechanics (cond-mat.stat-mech)
subject: Statistical Finance (q-fin.ST)
subject: FOS: Physical sciences
subject: FOS: Economics and business

description: Multifractal processes are a relatively new tool of stock market analysis. Their power lies in the ability to take multiple orders of autocorrelations into account explicitly. In the first part of the paper we discuss the framework of the Lux model and refine the underlying phenomenological picture. We also give a procedure of fitting all parameters to empirical data. We present a new approach to account for the effective length of power-law memory in volatility. The second part of the paper deals with the consequences of asymmetry in returns. We incorporate two related stylized facts, skewness and leverage autocorrelations into the model. Then from Monte Carlo measurements we show, that this asymmetry significantly increases the mean squared error of volatility forecasts. Based on a filtering method we give evidence on similar behavior in empirical data.
description: 23 pages, 8 figures, updated some figures and references, fixed two typos, accepted to Physica A
Mediaster roanae Mah 2018
Creators: name: Jangoux, Michel
Publisher: name: Zenodo
Year: 2022
Subjects: Biodiversity
Taxonomy
Animalia
Echinodermata
Asteroidea
Valvatida
Goniasteridae
Mediaster
Mediaster roanae

description: roanae Mah, 2018 Mediaster
Mediaster roanae Mah, 2018: 59.
CURRENT STATUS. — Mediaster roanae Mah, 2018.
TYPE MATERIAL. — Madagascar • holotype; 14°29’S, 47°26’E; 379– 332 m; MNHN-IE-2007-1029. • 4 paratypes; 14°29’S, 47°26’E; depth 379- 332 m; MNHN-IE-2007-1029. • 2 paratypes; 12°31’S, 48°15’E; depth 416 m; MNHN-IE-2007-1172.
description: Published as part of Jangoux, Michel, 2022, The type specimens of extant asteroids (Echinodermata) in the Muséum national d'Histoire naturelle of Paris, pp. 259-334 in Zoosystema 44 (11) on page 312, DOI: 10.5252/zoosystema2022v44a11, http://zenodo.org/record/6616817
Additional file 2 of Impact of renin–angiotensin–aldosterone system inhibition on mortality in critically ill COVID-19 patients with pre-existing hypertension: a prospective cohort study
Creators: name: Sato, Kei
name: White, Nicole
name: Fanning, Jonathon P.
name: Obonyo, Nchafatso
name: Yamashita, Michael H.
name: Appadurai, Vinesh
name: Ciullo, Anna
name: May, Meryta
name: Worku, Elliott T.
name: Helms, Leticia
name: Ohshimo, Shinichiro
name: Juzar, Dafsah A.
name: Suen, Jacky Y.
name: Bassi, Gianluigi Li
name: Fraser, John F.
name: Arora, Rakesh C.
Publisher: name: figshare
Year: 2022
Subjects: subject: Medicine
subject: Biotechnology
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Science Policy

description: Additional file 2: Figure S1. Multistate model structure.Figure S2. Flow diagram.Figure S3. Stratified baseline survival functions by corticosteroid use from Cox proportional hazards models.Table S1. Complications at any time during hospitalization.Table S2. Expected length of stay estimated from the multistate model.Table S3. Multi-state Cox proportional hazards model. Table S4. Propensity score adjusted estimates for the hazards of death and discharge.Table S5. Sensitivity analysis, Multi-state Cox proportional hazards model.Table S6. Sensitivity analysis, Propensity score adjusted estimates for the hazards of death and discharge.
Spherically symmetric relativistic MHD simulations of pulsar wind nebulae in supernova remnants
Creators: name: Bucciantini, N.
name: Blondin, J. M.
name: Del Zanna, L.
name: Amato, E.
Publisher: name: arXiv
Year: 2003
Subjects: subject: Astrophysics (astro-ph)
subject: FOS: Physical sciences

description: Pulsars, formed during supernova explosions, are known to be sources of relativistic magnetized winds whose interaction with the expanding supernova remnants (SNRs) gives rise to a pulsar wind nebula (PWN). We present spherically symmetric relativistic magnetohydrodynamics (RMHD) simulations of the interaction of a pulsar wind with the surrounding SNR, both in particle and magnetically dominated regimes. As shown by previous simulations, the evolution can be divided in three phases: free expansion, a transient phase characterized by the compression and reverberation of the reverse shock, and a final Sedov expansion. The evolution of the contact discontinuity between the PWN and the SNR (and consequently of the SNR itself) is almost independent of the magnetization of the nebula as long as the total (magnetic plus particle) energy is the same. However, a different behaviour of the PWN internal structure is observable during the compression-reverberation phase, depending on the degree of magnetization=2E The simulations were performed using the third order conservative scheme by Del Zanna et al. (2003).
description: 11 pages, Latex, 22 Encapsulated PostScript figures, accepted f or publication on A&A
Identification of molecular signatures and molecular dynamics simulation of highly deleterious missense variants of key autophagy regulator beclin 1: a computational based approach
Creators: name: Kaur, Sargeet
name: Vashistt, Jitendraa
name: Changotra, Harish
Publisher: name: Taylor & Francis
Year: 2023
Subjects: subject: Biophysics
subject: Biochemistry
subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Biotechnology
subject: Biological Sciences not elsewhere classified
subject: Information Systems not elsewhere classified
subject: Computational Biology

description: Beclin 1 is a key autophagy regulator that also plays significant roles in other intracellular processes such as vacuolar protein sorting. Beclin 1 protein functions as a scaffold in the formation of a multiprotein assemblage during autophagy. Beclin 1 is involved in various diseases such as cancers, neurodegenerative and autophagy-related disorders. In this study, we have used various in silico tools to scan beclin 1 at the molecular level to find its molecular signatures. We have predicted and analysed deleterious non-synonymous single nucleotide polymorphisms (nsSNPs) of beclin 1 causing alterations in its structure and also affecting its interactions with other proteins. In total, twelve coding region deleterious variants were predicted using sequence-based tools and nine were predicted using various structure-based tools. The molecular dynamics (MD) simulations revealed an altered stability of the native structure due to the introduction of mutations. Destabilization of beclin 1 ECD domain was observed due to nsSNPs W300R and E302K. Beclin 1 deleterious nsSNPs were predicted to show significant effects on beclin 1 interactions with ATG14L1, UVRAG and VPS34 proteins and were also predicted to alter the protein-protein interface of beclin 1 complexes. Additionally, beclin 1 was predicted to have thirty-one potential phosphorylation and three ubiquitination sites. In conclusion, the molecular details of beclin 1 could help in the better understanding of its functioning. The study of nsSNPs and their effect on beclin 1 and its interactions might aid in understanding the basis of anomalies caused due to beclin 1 dysfunction. Communicated by Ramaswamy H. Sarma
Ganeria falklandica Gray 1847
Creators: name: Jangoux, Michel
Publisher: name: Zenodo
Year: 2022
Subjects: Biodiversity
Taxonomy
Animalia
Echinodermata
Asteroidea
Valvatida
Ganeriidae
Ganeria
Ganeria falklandica

description: robusta Perrier, 1891, Ganeria
Ganeria robusta Perrier, 1891: 119, pl. 11, fig. 1a, b.
Ganeria falklandica ‒ Clark 1993: 201.
CURRENT STATUS. — Ganeria falklandica Gray, 1847.
TYPE MATERIAL. — Tierra del Fuego Archipelago • 2 syntype; Gregory Bay; Cape Horn expedition (1882-1883); depth 28 m; MNHN-IE-2014-278. • 1 syntype; Gable Island; same as for preceding; MNHN-IE-2014-354.
description: Published as part of Jangoux, Michel, 2022, The type specimens of extant asteroids (Echinodermata) in the Muséum national d'Histoire naturelle of Paris, pp. 259-334 in Zoosystema 44 (11) on page 312, DOI: 10.5252/zoosystema2022v44a11, http://zenodo.org/record/6616817
Potential Antimicrobial Activity of Marine Sponge Neopetrosia exigua
Creators: name: Majali, Ibrahim
name: Qaralleh, Haitham N.
name: Idid, Syed Z.
name: Saad, Shahbudin
name: Susanti, Deny
name: Althunibat, Osama Y.
Publisher: name: arXiv
Year: 2019
Subjects: subject: Biomolecules (q-bio.BM)
subject: FOS: Biological sciences

description: Neopetrosia exigua has received great attention in natural product chemistry. The diversity of N. exigua constituents has been demonstrated by the continued discovery of novel bioactive metabolites such as antimicrobial metabolites. In this study, in order to localise the active component of N. exigua biomass according to the polarity, a sequential gradient partition with different solvents (nhexane, carbon tetrachloride, dichloromethane, n-butanol, and water) was performed to obtain fractions containing metabolites distributed according to their polarity. The antimicrobial activities of N. exigua fractions were then evaluated using disc diffusion and microdilution methods (influence on the growth curve, Minimum Inhibitory Concentration (MIC) and Minimum Bactericidal Concentration (MBC)). The results showed that the active metabolites were present in n-hexane, CH2Cl2, nBuOH, and water fractions. n-hexane, CH2Cl2, and n-BuOH fractions were the most effective fractions. Among microbes tested, Staphylococcus aureus was the most susceptible microbe evaluated. The obtained results are considered sufficient for further study to isolate the compounds represent the antimicrobial activity.
description: 13 pages
Additional file 1 of Genomic evolution of Neisseria gonorrhoeae since the preantibiotic era (1928–2013): antimicrobial use/misuse selects for resistance and drives evolution
Creators: name: Golparian, Daniel
name: Harris, Simon
name: Sánchez-Busó, Leonor
name: Hoffmann, Steen
name: Shafer, William
name: Bentley, Stephen
name: Jensen, Jörgen
name: Unemo, Magnus
Publisher: name: figshare
Year: 2020
Subjects: subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Pharmacology
subject: Evolutionary Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: 60506 Virology

description: Additional file 1. Supplementary methods including DNA extraction, antimicrobial resistance breakpoints and bioinformatic analysis.
On Distributed Non-convex Optimization: Projected Subgradient Method For Weakly Convex Problems in Networks
Creators: name: Chen, Shixiang
name: Garcia, Alfredo
name: Shahrampour, Shahin
Publisher: name: arXiv
Year: 2020
Subjects: subject: Optimization and Control (math.OC)
subject: Machine Learning (cs.LG)
subject: Machine Learning (stat.ML)
subject: FOS: Mathematics
subject: FOS: Computer and information sciences

description: The stochastic subgradient method is a widely-used algorithm for solving large-scale optimization problems arising in machine learning. Often these problems are neither smooth nor convex. Recently, Davis et al. [1-2] characterized the convergence of the stochastic subgradient method for the weakly convex case, which encompasses many important applications (e.g., robust phase retrieval, blind deconvolution, biconvex compressive sensing, and dictionary learning). In practice, distributed implementations of the projected stochastic subgradient method (stoDPSM) are used to speed-up risk minimization. In this paper, we propose a distributed implementation of the stochastic subgradient method with a theoretical guarantee. Specifically, we show the global convergence of stoDPSM using the Moreau envelope stationarity measure. Furthermore, under a so-called sharpness condition, we show that deterministic DPSM (with a proper initialization) converges linearly to the sharp minima, using geometrically diminishing step-size. We provide numerical experiments to support our theoretical analysis.
Additional file 1 of AICAR and nicotinamide treatment synergistically augment the proliferation and attenuate senescence-associated changes in mesenchymal stromal cells
Creators: name: Mohammadhossein Khorraminejad-Shirazi
name: Sani, Mahsa
name: Talaei-Khozani, Tahereh
name: Mohammadreza Dorvash
name: Malihe Mirzaei
name: Faghihi, Mohammad
name: Monabati, Ahmad
name: Attar, Armin
Publisher: name: figshare
Year: 2020
Subjects: subject: Cell Biology
subject: Molecular Biology
subject: Pharmacology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Developmental Biology
subject: 60506 Virology
subject: Computational Biology

description: Additional file 1. Effect of AICAR+NAM treatment on mRNA expression of P16 and P21. Analysis of mRNA expression of P16 and P21 determined by qRT-PCR. (n=3 independent experiments). Each bar indicates mean Â±SD.
LHC signals of triplet scalars as dark matter portal: cut-based approach and improvement with gradient boosting and neural networks
Creators: name: Dey, Atri
name: Lahiri, Jayita
name: Mukhopadhyaya, Biswarup
Publisher: name: arXiv
Year: 2020
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: We consider a scenario where an SU(2) triplet scalar acts as the portal for a scalar dark matter particle. We identify regions of the parameter space, where such a triplet coexists with the usual Higgs doublet consistently with all theoretical as well as neutrino, accelerator and dark matter constraints, and the triplet-dominated neutral state has substantial invisible branching fraction. LHC signals are investigated for such regions, in the final state {\em same-sign dilepton + $\ge$ 2 jets + $\not E_T$.} While straightforward detectability at the high-luminosity run is predicted for some benchmark points in a cut-based analysis, there are other benchmarks where one has to resort to gradient boosting/neural network techniques in order to achieve appreciable signal significance.
description: 35 pages, 33 figures
Belonging amongst National Committee students at The United World College of South East Asia: A new model of belonging for students in international high schools
Creators: name: Heyting, Ellen
Publisher: name: Monash University
Year: 2021
Subjects: subject: Education
subject: 139999 Education not elsewhere classified
subject: FOS: Educational sciences

description: An investigation into the enablers and inhibitors of a sense of belonging amongst National Committee students at The United World College of South East Asia. By using a mixed method approach, low levels of belonging were found amongst an entire grade 11 cohort of students as well as several factors which inhibit and enable a sense of belonging. Literature suggesting traditional notions of belonging may not apply to this population are discussed and a new model of belonging is described and applied.
Willingness of the German Population to Volunteer in the Areas of Nature Conservation, Home Care and Public Services
Creators: name: Niens, Christine
name: Niens, Christine
Publisher: name: Unknown
Year: 2019
Subjects: subject: Community/Rural/Urban Development
subject: quantitative survey
subject: volunteer functions inventory
subject: social desirability

description: Volunteering is of high importance in Germany. Especially in rural areas, additional volunteers will be needed in the future to fill the gaps in local services and home care. In a similar way, nature conservation depends on the support provided by volunteers in various areas, such as for protecting biodiversity. This study analyses the "Willingness to volunteer" of the German population in three different areas: nature conservation, home care of the elderly and public services, using a quantitative survey (n = 584). Approximately half of the respondents do not exclude volunteering in the future. Results further point to a preference for volunteering in areas of nature conservation and public service instead of volunteering in home care. The interest in volunteering is primarily driven by intrinsic motivation and the respondents' attitudes are not biased by social desirability.
Additional file 1 of Impact of COPD and anemia on motor and cognitive performance in the general older population: results from the English longitudinal study of ageing
Creators: name: Padberg, Inken
name: Schneider, Alice
name: Rohmann, Jessica
name: Kelley, Sean
name: Grittner, Ulrike
name: Siegerink, Bob
Publisher: name: figshare
Year: 2020
Subjects: subject: Space Science
subject: Medicine
subject: Pharmacology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Computational Biology

description: Additional file 1: Table S1. COPD categorization based on pulmonary function. Table S2. Anemia vs. outcome measures at baseline. Table S3. Weight corrected participant baseline characteristics. Table S4. Complete case analysis of model M2: Effects of the combination of low HB and COPD on cognitive and motor outcomes. Table S5. Effects of the combination of low HB and COPD on cognitive and motor outcomes (with and without correction for cross-sectional and longitudinal weight including only the subgroup of participants for whom longitudinal weights were available). Table S6. Complete case analysis of M2, Separate effects and effect of the COPD and HB product term on chair rise and word memorization. Table S7. Separate and effect of the COPD and HB product term on chair rise (with and without correction for analytical weigths, including only the subgroup of participants for whom multiple measures and longitudinal weights were available). Table S8. Separate effects and effect of the COPD and HB product term on chair rise and word memorization without clinical parameters. Table S9. Effects of the combination of low HB and COPD on immediate words recall and balance.
Dasymutilla tomberlini Manley
Creators: name: MANLEY, DONALD G.
name: PITTS, JAMES P.
Publisher: name: Zenodo
Year: 2007
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hymenoptera
Mutillidae
Dasymutilla
Dasymutilla tomberlini

description: Dasymutilla tomberlini Manley
 Dasymutilla tomberlini Manley, 1999b. Proc. Ent. Soc. Wash. 101:412. Holotype female, Antelope Pass, Peloncillo Mountains, Hidalgo County, New Mexico, July 1990 (Barney Tomberlin) [CMNH].
 Diagnosis of Female (Plate C9C). This species can be recognized by the disk of tergum I, which is conspicuously smooth and shining, and coloration. The entire body, dorsum, venter, pleura, and legs, is clothed with pale, yellow setae. The integument is entirely of a dark, reddish color, and the disk of tergum I is conspicuously smooth and shining. Also, the female has the antennal scrobe strongly carinate dorsally, but a genal carina is absent. The posterolateral angle of the head is not tuberculate. The mesosoma is longer than broad (although barely), and possesses a scutellar scale.
 Male: Unknown.
 Distribution. USA (New Mexico); Mexico.
 Remarks. This recently described species is known only from the female. It is known from only one specimen other than the originally described 11 specimens. Despite extensive collecting at the type locality by both the authors and others, no additional females have been collected, nor has a potential male for this species been discovered. The reddish integument, all yellow setae, and smooth and shining disk of tergum I readily distinguish this species.
description: Published as part of MANLEY, DONALD G. & PITTS, JAMES P., 2007, Tropical and Subtropical Velvet Ants of the Genus Dasymutilla Ashmead (Hymenoptera: Mutillidae) with Descriptions of 45 New Species, pp. 1-128 in Zootaxa 1487 (1) on page 96, DOI: 10.11646/zootaxa.1487.1.1, http://zenodo.org/record/5086787
Analysis of Evolutionary Algorithms on Fitness Function with Time-linkage Property
Creators: name: Zheng, Weijie
name: Chen, Huanhuan
name: Yao, Xin
Publisher: name: arXiv
Year: 2020
Subjects: subject: Neural and Evolutionary Computing (cs.NE)
subject: FOS: Computer and information sciences

description: In real-world applications, many optimization problems have the time-linkage property, that is, the objective function value relies on the current solution as well as the historical solutions. Although the rigorous theoretical analysis on evolutionary algorithms has rapidly developed in recent two decades, it remains an open problem to theoretically understand the behaviors of evolutionary algorithms on time-linkage problems. This paper takes the first step to rigorously analyze evolutionary algorithms for time-linkage functions. Based on the basic OneMax function, we propose a time-linkage function where the first bit value of the last time step is integrated but has a different preference from the current first bit. We prove that with probability $1-o(1)$, randomized local search and $(1+1)$ EA cannot find the optimum, and with probability $1-o(1)$, $(μ+1)$ EA is able to reach the optimum.
description: Accepted for publication in the IEEE Transactions on Evolutionary Computation
Additional file 10 of Immunogenicity of personalized dendritic-cell therapy in HIV-1 infected individuals under suppressive antiretroviral treatment: interim analysis from a phase II clinical trial
Creators: name: de Almeida Baptista, Marcella Vassão
name: da Silva, Laís Teodoro
name: Samer, Sadia
name: Oshiro, Telma Miyuki
name: Shytaj, Iart Luca
name: Giron, Leila B.
name: Pena, Nathalia Mantovani
name: Cruz, Nicolly
name: Gosuen, Gisele Cristina
name: Ferreira, Paulo Roberto Abrão
name: Cunha-Neto, Edécio
name: Galinskas, Juliana
name: Dias, Danilo
name: Sucupira, Maria Cecilia Araripe
name: de Almeida-Neto, Cesar
name: Salomão, Reinaldo
name: da Silva Duarte, Alberto José
name: Janini, Luís Mário
name: Hunter, James R.
name: Savarino, Andrea
name: Juliano, Maria Aparecida
name: Diaz, Ricardo Sobhie
Publisher: name: figshare
Year: 2022
Subjects: subject: Immunology
subject: FOS: Clinical medicine

description: Additional file 10: Fig. S10. Impact of the time on ART on cytokine production post-MDDCT. The graph visualizes the relation between the time in days since the first MDDCT dose and the expression of immune response mediating cytokines in CD4+ (Panel A) and CD8+ (Panel B) T-cells. Patients were stratified into two categories based on the overall time of ART administration since their diagnosis (i.e. > 10 years, “long” and
Novodinia semicoronata
Creators: name: Jangoux, Michel
Publisher: name: Zenodo
Year: 2022
Subjects: Biodiversity
Taxonomy
Animalia
Echinodermata
Asteroidea
Brisingida
Brisingidae
Novodinia
Novodinia semicoronata

description: robusta Perrier, 1885, Odinia
Odinia robusta Perrier, 1885: 11 ‒ Perrier 1894: 78, pl. 6.
Novodinia semicoronata ‒ Clark & Downey 1992: 475.
CURRENT STATUS. — Novodinia semicoronata (Perrier, 1885).
TYPE MATERIAL. — Canary Islands • 1 syntype; station 72; Talisman expedition; 1883; 25°39’N, 18°22’W; depth 882 m; MNHN- IE-2014-106 • 1 syntype; station 73; same as for preceding; 25°39’N, 18°26’W; depth 1435 m; MNHN-IE-2014-107.
description: Published as part of Jangoux, Michel, 2022, The type specimens of extant asteroids (Echinodermata) in the Muséum national d'Histoire naturelle of Paris, pp. 259-334 in Zoosystema 44 (11) on pages 312-313, DOI: 10.5252/zoosystema2022v44a11, http://zenodo.org/record/6616817
Quantum Computing with Atomic Josephson Junction Arrays
Creators: name: Tian, Lin
name: Zoller, P.
Publisher: name: arXiv
Year: 2003
Subjects: subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: We present a quantum computing scheme with atomic Josephson junction arrays. The system consists of a small number of atoms with three internal states and trapped in a far-off resonant optical lattice. Raman lasers provide the "Josephson" tunneling, and the collision interaction between atoms represent the "capacitive" couplings between the modes. The qubit states are collective states of the atoms with opposite persistent currents. This system is closely analogous to the superconducting flux qubit. Single qubit quantum logic gates are performed by modulating the Raman couplings, while two-qubit gates result from a tunnel coupling between neighboring wells. Readout is achieved by tuning the Raman coupling adiabatically between the Josephson regime to the Rabi regime, followed by a detection of atoms in internal electronic states. Decoherence mechanisms are studied in detail promising a high ratio between the decoherence time and the gate operation time.
description: 7 figures
Structure-Augmented Text Representation Learning for Efficient Knowledge Graph Completion
Creators: name: Wang, Bo
name: Shen, Tao
name: Long, Guodong
name: Zhou, Tianyi
name: Chang, Yi
Publisher: name: arXiv
Year: 2020
Subjects: subject: Computation and Language (cs.CL)
subject: FOS: Computer and information sciences

description: Human-curated knowledge graphs provide critical supportive information to various natural language processing tasks, but these graphs are usually incomplete, urging auto-completion of them. Prevalent graph embedding approaches, e.g., TransE, learn structured knowledge via representing graph elements into dense embeddings and capturing their triple-level relationship with spatial distance. However, they are hardly generalizable to the elements never visited in training and are intrinsically vulnerable to graph incompleteness. In contrast, textual encoding approaches, e.g., KG-BERT, resort to graph triple's text and triple-level contextualized representations. They are generalizable enough and robust to the incompleteness, especially when coupled with pre-trained encoders. But two major drawbacks limit the performance: (1) high overheads due to the costly scoring of all possible triples in inference, and (2) a lack of structured knowledge in the textual encoder. In this paper, we follow the textual encoding paradigm and aim to alleviate its drawbacks by augmenting it with graph embedding techniques -- a complementary hybrid of both paradigms. Specifically, we partition each triple into two asymmetric parts as in translation-based graph embedding approach, and encode both parts into contextualized representations by a Siamese-style textual encoder. Built upon the representations, our model employs both deterministic classifier and spatial measurement for representation and structure learning respectively. Moreover, we develop a self-adaptive ensemble scheme to further improve the performance by incorporating triple scores from an existing graph embedding model. In experiments, we achieve state-of-the-art performance on three benchmarks and a zero-shot dataset for link prediction, with highlights of inference costs reduced by 1-2 orders of magnitude compared to a textual encoding method.
description: 12 pages, WWW'21, April19-23, 2021, Ljubljana, Slovenia
The Phase Diagram of High Temperature QCD with Three Flavors of Improved Staggered Quarks
Creators: name: The MILC Collaboration
name: Bernard, C.
name: Burch, T.
name: DeTar, C. E.
name: Gottlieb, Steven
name: Gregory, E. B.
name: Heller, U. M.
name: Hetrick, J. E.
name: Sugar, R. L.
name: Toussaint, D.
Publisher: name: arXiv
Year: 2003
Subjects: subject: High Energy Physics - Lattice (hep-lat)
subject: FOS: Physical sciences

description: We report on progress in our study of high temperature QCD with three flavors of improved staggered quarks. Simulations are being carried out with three degenerate quarks with masses less than or equal to the strange quark mass, $m_s$, and with degenerate up and down quarks with masses in the range $0.1 m_s \leq m_{u,d}\leq 0.6 m_s$, and the strange quark mass fixed near its physical value. For the quark masses studied to date we find rapid crossovers, which sharpen as the quark mass is reduced, rather than bona fide phase transitions.
description: Lattice 2003 (Nonzero temperature and density)
Statistical properties of the quantum internet
Creators: name: Brito, Samuraí
name: Canabarro, Askery
name: Chaves, Rafael
name: Cavalcanti, Daniel
Publisher: name: arXiv
Year: 2019
Subjects: subject: Quantum Physics (quant-ph)
subject: Statistical Mechanics (cond-mat.stat-mech)
subject: FOS: Physical sciences

description: Steady technological advances are paving the way for the implementation of the quantum internet, a network of locations interconnected by quantum channels. Here we propose a model to simulate a quantum internet based on optical fibers and employ network-theory techniques to characterize the statistical properties of the photonic networks it generates. Our model predicts a continuous phase transition between a disconnected and a highly-connected phase characterized by the computation of critical exponents. Moreover we show that, although the networks do not present the small world property, the average distance between nodes is typically small.
description: 5+5 pages, 13 figures
Bistability and time crystals in long-ranged directed percolation
Creators: name: Pizzi, Andrea
name: Nunnenkamp, Andreas
name: Knolle, Johannes
Publisher: name: arXiv
Year: 2020
Subjects: subject: Statistical Mechanics (cond-mat.stat-mech)
subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: Stochastic processes govern the time evolution of a huge variety of realistic systems throughout the sciences. A minimal description of noisy many-particle systems within a Markovian picture and with a notion of spatial dimension is given by probabilistic cellular automata, which typically feature time-independent and short-ranged update rules. Here, we propose a simple cellular automaton with power-law interactions that gives rise to a bistable phase of long-ranged directed percolation whose long-time behaviour is not only dictated by the system dynamics, but also by the initial conditions. In the presence of a periodic modulation of the update rules, we find that the system responds with a period larger than that of the modulation for an exponentially (in system size) long time. This breaking of discrete time translation symmetry of the underlying dynamics is enabled by a self-correcting mechanism of the long-ranged interactions which compensates noise-induced imperfections. Our work thus provides a firm example of a classical discrete time crystal phase of matter and paves the way for the study of novel non-equilibrium phases in the unexplored field of `Floquet probabilistic cellular automata'.
description: 9+3 pages, 4+2 figures
Additional file 1 of Immunogenicity of personalized dendritic-cell therapy in HIV-1 infected individuals under suppressive antiretroviral treatment: interim analysis from a phase II clinical trial
Creators: name: de Almeida Baptista, Marcella Vassão
name: da Silva, Laís Teodoro
name: Samer, Sadia
name: Oshiro, Telma Miyuki
name: Shytaj, Iart Luca
name: Giron, Leila B.
name: Pena, Nathalia Mantovani
name: Cruz, Nicolly
name: Gosuen, Gisele Cristina
name: Ferreira, Paulo Roberto Abrão
name: Cunha-Neto, Edécio
name: Galinskas, Juliana
name: Dias, Danilo
name: Sucupira, Maria Cecilia Araripe
name: de Almeida-Neto, Cesar
name: Salomão, Reinaldo
name: da Silva Duarte, Alberto José
name: Janini, Luís Mário
name: Hunter, James R.
name: Savarino, Andrea
name: Juliano, Maria Aparecida
name: Diaz, Ricardo Sobhie
Publisher: name: figshare
Year: 2022
Subjects: subject: Immunology
subject: FOS: Clinical medicine

description: Additional file 1: Fig. S1. Schematic workflow of the protocols used for the maturation of MDDCs and MDDCT preparation. Maturation of MDDCs from monocytes was induced using either a cytokine cocktail based on IL-4 (longer protocol; Panel A) or a cytokine cocktail based on IFN-α (shorter protocol; Panel B).
Apigenin promotes cell death in NCI-H23 cells by upregulation of PTEN: potential involvement of the binding of apigenin with WWP2 protein
Creators: name: Borah, Sapna Mayuri
name: Kma, Lakhon
name: Darjee, Muskan Sonam
name: Deka, Dikshit
name: Lyngdoh, Anisha
name: Sharan, Rajesh N.
name: Baruah, Taranga Jyoti
Publisher: name: Taylor & Francis
Year: 2023
Subjects: subject: Biophysics
subject: Biochemistry
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Pharmacology
subject: Chemical Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Cancer
subject: Hematology

description: The tumour suppressor protein PTEN is often down-regulated in non-small cell lung cancer. A major protein promoting the lowering of the PTEN protein is WWP2. Polyphenols have been shown to promote the expression of tumour suppressor genes like PTEN. We carry out the study to check for the ability of apigenin to bind with the WWP2 protein using in-silico investigation comprising docking and simulation. We checked for the cytotoxic effect of apigenin upon the non-small cell lung cancer cell line NCI-H23. We checked the PTEN expression status at the gene and protein levels. The expression levels of the apoptotic regulators BCL2, BAX and CASPASE3 genes along with the activity levels of the caspase-3 protein were checked. The ultrastructure of the cells was analysed. Our Autodock analysis showed that apigenin bound favourably with the WWP2 protein. Molecular dynamics simulation revealed that apigenin increased the parameters of RMSD, Rg and SASA when bound with the WWP2 protein. The protein-ligand complex had hydrogen bonding and majorly van der Wal’s interactions. PCA analysis revealed greater fluctuations in the apigenin-bound state of the protein. The mutant form of the WWP2 revealed similar results in the presence of apigenin. Apigenin showed efficacy against the NCI-H23 cell line and promoted PTEN protein levels, lowered BCL2 gene expression and up-regulated BAX and CASPASE3 gene expression. Increased caspase-3 activity and ultra-structural analysis revealed the occurrence of apoptosis. Thus the binding of apigenin with WWP2 could promote PTEN protein levels and lead to apoptotic activity in NCI-H23 cells. Communicated by Ramaswamy H. Sarma
Anseropoda rosacea
Creators: name: Jangoux, Michel
Publisher: name: Zenodo
Year: 2022
Subjects: Biodiversity
Taxonomy
Animalia
Echinodermata
Asteroidea
Valvatida
Asterinidae
Anseropoda
Anseropoda rosacea

description: rosacea var. lobis quindenis Lamarck, 1816, Asterias
Asterias rosacea var. lobis quindenis Lamarck, 1816: 558.
Anseropoda rosacea ‒ Clark 1993: 206. — Jangoux 2021: 242.
CURRENT STATUS. — Anseropoda rosacea (Lamarck, 1816).
TYPE MATERIAL. — South Seas • holotype; Baudin expedition; 1800- 1804; Péron & Lesueur leg.; MNHN-IE-2014-62.
REMARK
Photograph and original drawings of A. rosacea var. lobis quidenis holotype are presented in Jangoux (2021: 243 fig.33).
The name lobis quindenis means “with fifteen lobes”.
description: Published as part of Jangoux, Michel, 2022, The type specimens of extant asteroids (Echinodermata) in the Muséum national d'Histoire naturelle of Paris, pp. 259-334 in Zoosystema 44 (11) on page 313, DOI: 10.5252/zoosystema2022v44a11, http://zenodo.org/record/6616817
Determination of the a0-a2 pion scattering length from K->pi+ pi0 pi0 decay
Creators: name: Cabibbo, Nicola
Publisher: name: arXiv
Year: 2004
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: We present a new method for the determination of the pion-pion scattering lenght combination a0-a2, based on the study of the pi0-pi0 spectrum in K->pi+ pi0 pi0 in the vicinity of the pi+ pi- threshold. The method requires a minimum of theoretical input, and is potentially very accurate.
description: 8 pages, 2 figures -- corrected two typos
Ethical Leadership and Salesperson Job Performance: The Impact of Remote Supervision
Creators: name: Serviss, Emory
Publisher: name: 2021 Global Sales Science Institute / AMA Sales SIG Conference
Year: 2021
Subjects: Ethical Leadership
Social Learning Theory
Sales
Job Performance
Organizational Commitment

description: Remote salespeople are moving away from in-person interactions and toward using technology to keep in contact with their supervisors. There are ethical perspectives that should be considered in a remote work environment. While literature surrounding social learning theory has explored the degree to which behaviors can be acquired by observing and imitating others, there has been little focus on whether salespeople can emulate ethical leadership behavior when they work in a different location from their supervisor. This manuscript proposes a study that examines how remote supervision impacts the relationship between the affective organizational commitment of the salesperson and job performance.
Neighborhood complexes and generating functions for affine semigroups
Creators: name: Scarf, Herbert E.
name: Woods, Kevin M.
Publisher: name: arXiv
Year: 2004
Subjects: subject: Combinatorics (math.CO)
subject: Optimization and Control (math.OC)
subject: FOS: Mathematics
subject: 05A15 (Primary) 90C10 (Secondary)

description: Given a_1,a_2,...,a_n in Z^d, we examine the set, G, of all non-negative integer combinations of these a_i. In particular, we examine the generating function f(z)=\sum_{b\in G} z^b. We prove that one can write this generating function as a rational function using the neighborhood complex (sometimes called the complex of maximal lattice-free bodies or the Scarf complex) on a particular lattice in Z^n. In the generic case, this follows from algebraic results of D. Bayer and B. Sturmfels. Here we prove it geometrically in all cases, and we examine a generalization involving the neighborhood complex on an arbitrary lattice.
First radio evidence for impulsive heating contribution to the quiet solar corona
Creators: name: Mondal, Surajit
name: Oberoi, Divya
name: Mohan, Atul
Publisher: name: arXiv
Year: 2020
Subjects: subject: Solar and Stellar Astrophysics (astro-ph.SR)
subject: FOS: Physical sciences

description: This letter explores the relevance of nanoflare based models for heating the quiet sun corona. Using metrewave data from the Murchison Widefield Array, we present the first successful detection of impulsive emissions down to flux densities of $\sim$mSFU, about two orders of magnitude weaker than earlier attempts. These impulsive emissions have durations $\lesssim 1$s and are present throughout the quiet solar corona. The fractional time occupancy of these impulsive emissions at a given region is $\lesssim 10\%$. The histograms of these impulsive emissions follow a powerlaw distribution and show signs of clustering at small timescales. Our estimate of the energy which must be dumped in the corona to generate these impulsive emissions is consistent with the coronal heating requirements. Additionally, the statistical properties of these impulsive emissions are very similar to those recently determined for magnetic switchbacks by the Parker Solar Probe (PSP). We hope that this work will lead to a renewed interest in relating these weak impulsive emissions to the energy deposited in the corona, the quantity of physical interesting from a coronal heating perspective, and explore their relationship with the magnetic switchbacks observed by the PSP.
description: Published in ApJ Letters
MOESM13 of The complete mitochondrial genome of Taxus cuspidata (Taxaceae): eight protein-coding genes have transferred to the nuclear genome
Creators: name: Kan, Sheng-Long
name: Shen, Ting-Ting
name: Gong, Ping
name: Ran, Jin-Hua
name: Wang, Xiao-Quan
Publisher: name: figshare
Year: 2020
Subjects: subject: Space Science
subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Evolutionary Biology
subject: Environmental Sciences not elsewhere classified
subject: Biological Sciences not elsewhere classified
subject: Infectious Diseases
subject: FOS: Health sciences

description: Additional file 13 Table S6. Nuclear-derived repetitive sequences in the sampled gymnosperm mitogenomes.
Additional file 11 of Immunogenicity of personalized dendritic-cell therapy in HIV-1 infected individuals under suppressive antiretroviral treatment: interim analysis from a phase II clinical trial
Creators: name: de Almeida Baptista, Marcella Vassão
name: da Silva, Laís Teodoro
name: Samer, Sadia
name: Oshiro, Telma Miyuki
name: Shytaj, Iart Luca
name: Giron, Leila B.
name: Pena, Nathalia Mantovani
name: Cruz, Nicolly
name: Gosuen, Gisele Cristina
name: Ferreira, Paulo Roberto Abrão
name: Cunha-Neto, Edécio
name: Galinskas, Juliana
name: Dias, Danilo
name: Sucupira, Maria Cecilia Araripe
name: de Almeida-Neto, Cesar
name: Salomão, Reinaldo
name: da Silva Duarte, Alberto José
name: Janini, Luís Mário
name: Hunter, James R.
name: Savarino, Andrea
name: Juliano, Maria Aparecida
name: Diaz, Ricardo Sobhie
Publisher: name: figshare
Year: 2022
Subjects: subject: Immunology
subject: FOS: Clinical medicine

description: Additional file 11: Table S1. List of peptides used for pulsing MDDCs of each individual. Enneamers (9 mers) were designed according to their predicted immunogenicity in a given individual, as described in the main text. Peptides were then used to pulse MDDCs before their reinfusion in MDDCT recipients according to the workflow depicted in Additional file 1: Fig. S1. Note that some autologous peptides are common to more than one patient.
Ultra-high-Q resonances in plasmonic metasurfaces
Creators: name: Bin-Alam, M. Saad
name: Reshef, Orad
name: Mamchur, Yaryna
name: Alam, M. Zahirul
name: Carlow, Graham
name: Upham, Jeremy
name: Sullivan, Brian T.
name: Ménard, Jean-Michel
name: Huttunen, Mikko J.
name: Boyd, Robert W.
name: Dolgaleva, Ksenia
Publisher: name: arXiv
Year: 2020
Subjects: subject: Optics (physics.optics)
subject: FOS: Physical sciences

description: Plasmonic nanostructures hold promise for the realization of ultra-thin sub-wavelength devices, reducing power operating thresholds and enabling nonlinear optical functionality in metasurfaces. However, this promise is substantially undercut by absorption introduced by resistive losses, causing the metasurface community to turn away from plasmonics in favour of alternative material platforms (e.g., dielectrics) that provide weaker field enhancement, but more tolerable losses. Here, we report a plasmonic metasurface with a quality-factor (Q-factor) of 2340 in the telecommunication C band by exploiting surface lattice resonances (SLRs), exceeding the record by an order of magnitude. Additionally, we show that SLRs retain many of the same benefits as localized plasmonic resonances, such as field enhancement and strong confinement of light along the metal surface. Our results demonstrate that SLRs provide an exciting and unexplored method to tailor incident light fields, and could pave the way to flexible wavelength-scale devices for any optical resonating application.
description: 15 pages, includes supporting information