cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Additional file 6 of Genomic epidemiology of methicillin-resistant and -susceptible Staphylococcus aureus from bloodstream infections
Creators: name: Smith, Joshua T.
name: Eckhardt, Elissa M.
name: Hansel, Nicole B.
name: Eliato, Tahmineh Rahmani
name: Martin, Isabella W.
name: Andam, Cheryl P.
Publisher: name: figshare
Year: 2021
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Evolutionary Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: Cancer
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: 60506 Virology

description: Additional file 6: Fig. S3. Distribution of virulence genes using VirulenceFinder and the Virulence Factor Database (VFDB). Details are shown in Supplementary Table S4.
Theoretical study of the chlorine adsorption on the Ag(111) surface
Creators: name: Doll, K.
name: Harrison, N. M.
Publisher: name: arXiv
Year: 2001
Subjects: subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: We study the adsorption of chlorine on the Ag(111) surface with full potential gradient corrected density functional calculations. When considering a root3 x root3 R30degree pattern, we find that the fcc hollow is the most favorable adsorption site. We obtain an Ag-Cl bond length of 2.62 Angstrom which is intermediate between two controversial experimental results. We discuss the differences of core level energies and densities of states for the different adsorption sites. We find the Cl-Ag interaction to be more consistent with an ionic, rather than covalent, picture of the bonding. In addition, we compute energetics and related properties of Ag bulk and the clean Ag surface comparing the local density approximation and the generalized gradient approximation.
description: accepted by Phys. Rev. B
MOESM4 of In vivo fluorescent cercariae reveal the entry portals of Cardiocephaloides longicollis (Rudolphi, 1819) Dubois, 1982 (Strigeidae) into the gilthead seabream Sparus aurata L.
Creators: name: Beest, Gabrielle Van
name: Villar-Torres, Mar
name: Raga, Juan
name: Montero, Francisco
name: Born-Torrijos, Ana
Publisher: name: figshare
Year: 2019
Subjects: subject: Biochemistry
subject: Medicine
subject: Cell Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Cancer
subject: Computational Biology

description: Additional file 4: Table S4. Evaluation of the effect of CFSE different concentrations on cercarial survival.
On the homogenization of means
Creators: name: Páles, Zsolt
name: Pasteczka, Paweł
Publisher: name: arXiv
Year: 2018
Subjects: subject: Classical Analysis and ODEs (math.CA)
subject: FOS: Mathematics
subject: 26D10, 26E60

description: The aim of this paper is to introduce several notions of homogenization in various classes of weighted means, which include quasiarithmetic and semideviation means. In general, the homogenization is an operator which attaches a homogeneous mean to a given one. Our results show that, under some regularity or convexity assumptions, the homogenization of quasiarithmetic means are power means, and homogenization of semideviation means are homogeneous semideviation means. In other results, we characterize the comparison inequality, the Jensen concavity, and Minkowski- and Hölder-type inequalities related to semideviation means.
Tristichopteridae Cope 1887
Creators: name: Laan, Richard Van Der
Publisher: name: Zenodo
Year: 2018
Subjects: Biodiversity
Taxonomy
Animalia
Chordata
Sarcopterygii
Osteolepiformes
Tristichopteridae

description: Family † Tristichopteridae Cope 1887
 † Tristichopteridae Cope 1887: 1018 (family) † Tristichopterus Egerton 1861 [type genus inferred from the stem, Art. 11.7.1.1]
 †Eustenopteridae Berg 1955: 94 (family) † Eustenopteron Whiteaves 1881 [Borgen & Nakrem 2016: 4 prefer the family name †Eustenopteridae being ‘more convenient’ and by referring to the first (!) edition of the Code] †Platycephalichthyinae Vorobyeva 1975: 54 (subfamily) † Platycephalichthys Vorobyeva 1959 †Notorhizodontidae Davis 1994: 70 (family) † Notorhizodon Young, Long & Ritchie 1992 [name only, published after 1960, not available, Art. 13.1.1] †Mandageriinae Young 2008: 321 (subfamily) † Mandageria Johanson & Ahlberg 1997
description: Published as part of Laan, Richard Van Der, 2018, Family-group names of fossil fishes, pp. 1-167 in European Journal of Taxonomy 466 on pages 91-92, DOI: 10.5852/ejt.2018.466, http://zenodo.org/record/5557557
Additional file 1 of Bridging the state and market logics of refugee labour market inclusion – a comparative study on the inclusion activities of German professional chambers
Creators: name: Maletzky de García, Martina
Publisher: name: figshare
Year: 2021
Subjects: subject: Genetics
subject: FOS: Biological sciences
subject: Pharmacology
subject: Biotechnology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Marine Biology
subject: Cancer
subject: Science Policy
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Additional file 1: Appendix 1. List of professions controlled by the German Chambers of Industry and Commerce. Appendix 2. List of professions controlled by the German Chambers of Skilled Crafts.
The Future of Mr. Jefferson's Laboratory (nee CEBAF)
Creators: name: Carlson, Carl E.
Publisher: name: arXiv
Year: 1997
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: We present one viewpoint plus some general information on the plans for energy upgrades and physics research at the Jefferson Laboratory.
description: 12 pages, LaTeX, Talk presented at the Second ELFE Workshop on Hadronic Physics
Supplementary document for Polarization imaging based radiomics approach for the staging of liver fibrosis - 5698548.pdf
Creators: name: Yao, Yue
name: Zhang, Fengdi
name: Wang, Bin
name: Wan, Jiachen
name: SI, Lu
name: Dong, Yang
name: Zhu, Yuanhuan
name: Liu, Xiaolong
name: Chen, Lihong
name: Ma, Hui
Publisher: name: Optica Publishing Group
Year: 2022
Subjects: Uncategorized

description: Equations and Physical Meanings of Polarization Parameters
Family-group names of fossil fishes
Creators: name: Laan, Richard Van Der
Publisher: name: Zenodo
Year: 2018
Subjects: Biodiversity
Taxonomy

description: Family †Medoeviidae Borgen & Nakrem 2016
 † Medoevididae [†Medoeviidae] Borgen & Nakrem 2016: 463 (family) † Medoevia Lebedev 1995 [although family-group names proposed after 1999 cannot be corrected (Arts 29.3.3 and 29.4), I think a simple typing error can explain the incorrectly spelled family-group name; the correct stem is deemed to be Medoevi-]
description: Published as part of Laan, Richard Van Der, 2018, Family-group names of fossil fishes, pp. 1-167 in European Journal of Taxonomy 466 on page 92, DOI: 10.5852/ejt.2018.466, http://zenodo.org/record/5557557
Bethe ansatz for the Harper equation: Solution for a small commensurability parameter
Creators: name: Krasovsky, I. V.
Publisher: name: arXiv
Year: 1998
Subjects: subject: Condensed Matter (cond-mat)
subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: The Harper equation describes an electron on a 2D lattice in magnetic field and a particle on a 1D lattice in a periodic potential, in general, incommensurate with the lattice potential. We find the distribution of the roots of Bethe ansatz equations associated with the Harper equation in the limit as alpha=1/Q tends to 0, where alpha is the commensurability parameter (Q is integer). Using the knowledge of this distribution we calculate the higher and lower boundaries of the spectrum of the Harper equation for small alpha. The result is in agreement with the semiclassical argument, which can be used for small alpha.
description: 17 pages including 5 postscript figures, Latex, minor changes, to appear in Phys.Rev.B
Additional file 4 of Genomic epidemiology of methicillin-resistant and -susceptible Staphylococcus aureus from bloodstream infections
Creators: name: Smith, Joshua T.
name: Eckhardt, Elissa M.
name: Hansel, Nicole B.
name: Eliato, Tahmineh Rahmani
name: Martin, Isabella W.
name: Andam, Cheryl P.
Publisher: name: figshare
Year: 2021
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Evolutionary Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: Cancer
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: 60506 Virology

description: Additional file 4: Fig. S2. Pan-genome analysis of 323 S. aureus genomes. (a) Presence-absence matrix of gene clusters as determined by Roary, aligned to the phylogeny. Blue indicates presence. (b) Gene frequency histogram indicating the number of genomes each gene is present in. (c) The size of the pan-genome (blue), core genome (red), unique gene additions (purple) and new genes (green) as related to the number of individuals in the population. Proportional illustration of core, soft-core, shell, and cloud genes across the pangenome.
Additional file 2: of Organ system network analysis and biological stability in critically ill patients
Creators: name: Asada, Toshifumi
name: Doi, Kent
name: Inokuchi, Ryota
name: Hayase, Naoki
name: Yamamoto, Miyuki
name: Morimura, Naoto
Publisher: name: figshare
Year: 2019
Subjects: subject: Space Science
subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: Science Policy

description: Table S1. Eigenvectors of each principal component. Table S2. Correlations among respiratory, renal and inflammatory systems in total survivors. Table S3. Correlations among cardiovascular, hepatic and coagulation systems in total survivors. Table S4. Correlations among respiratory, renal and inflammatory systems in matched survivors. Table S5. Correlations among cardiovascular, hepatic and coagulation systems in matched survivors. Table S6. Correlations among respiratory, renal and inflammatory systems in non-survivors. Table S7. Correlations among cardiovascular, hepatic and coagulation systems in non-survivors. (DOCX 22 kb)
The effect of diffusive re-equilibration time on trace element partitioning between alkali feldspar and trachytic melts
Creators: name: Arzilli, Fabio
name: Fabbrizio, Alessandro
name: Schmidt, M. W.
name: Petrelli, Maurizio
name: Maimaiti, M
name: Dingwell, D. B.
name: Paris, E.
name: Burton, M.
name: Carroll, M.
Publisher: name: arXiv
Year: 2018
Subjects: subject: Geophysics (physics.geo-ph)
subject: FOS: Physical sciences

description: We present new experimental data on major and trace element partition coefficients between alkali feldspar and trachytic melt. Experiments were conducted at 500 MPa, 870 890 °C to investigate through short disequilibrium and long near equilibrium experiments the influence of diffusive re-equilibration on trace element partitioning during crystallization. Our data show that Ba and Sr behave compatibly, and their partition coefficients are influenced by re-equilibration time, orthoclase (Or) content, growth rate and cation order-disorder. High field strength elements (HFSE) and rare earth elements (except Eu) are strongly incompatible, but alkali feldspar efficiently fractionates light (LREE) from heavy rare earth elements (HREE). Our crystallization experiments reveal a strong influence of disequilibrium crystal growth on the partitioning of Ba and Sr. In particular, short-duration experiments show that rapid alkali feldspar crystal growth after nucleation, promotes disordered growth and less selectivity in the partitioning of compatible trace elements that easily enter the crystal lattice (e.g., Ba and Sr)....
Coulomb drag between one-dimensional conductors
Creators: name: Ponomarenko, Vadim
name: Averin, Dmitri
Publisher: name: arXiv
Year: 2000
Subjects: subject: Condensed Matter (cond-mat)
subject: FOS: Physical sciences

description: We have analyzed Coulomb drag between currents of interacting electrons in two parallel one-dimensional conductors of finite length $L$ attached to external reservoirs. For strong coupling, the relative fluctuations of electron density in the conductors acquire energy gap $M$. At energies larger than $Γ= const \times v_- \exp (-LM/v_-)/L + Γ_{+}$, where $Γ_{+}$ is the impurity scattering rate, and for $L>v_-/M$, where $v_-$ is the fluctuation velocity, the gap leads to an ``ideal'' drag with almost equal currents in the conductors. At low energies the drag is suppressed by coherent instanton tunneling, and the zero-temperature transconductance vanishes, indicating the Fermi liquid behavior.
description: 5 twocolumn pages in RevTex, added 1 eps-Figure and calculation of trans-resistance
Additional file 1 of Direct and indirect costs and cost-driving factors of Tuberous sclerosis complex in children, adolescents, and caregivers: a multicenter cohort study
Creators: name: Grau, Janina
name: Zöllner, Johann Philipp
name: Schubert-Bast, Susanne
name: Kurlemann, Gerhard
name: Hertzberg, Christoph
name: Wiemer-Kruel, Adelheid
name: Bast, Thomas
name: Bertsche, Astrid
name: Bettendorf, Ulrich
name: Fiedler, Barbara
name: Hahn, Andreas
name: Hartmann, Hans
name: Hornemann, Frauke
name: Immisch, Ilka
name: Jacobs, Julia
name: Kieslich, Matthias
name: Klein, Karl Martin
name: Klotz, Kerstin A.
name: Kluger, Gerhard
name: Knuf, Markus
name: Mayer, Thomas
name: Marquard, Klaus
name: Meyer, Sascha
name: Muhle, Hiltrud
name: Müller-Schlüter, Karen
name: Noda, Anna H.
name: Ruf, Susanne
name: Sauter, Matthias
name: Schlump, Jan-Ulrich
name: Syrbe, Steffen
name: Thiels, Charlotte
name: Trollmann, Regina
name: Wilken, Bernd
name: Willems, Laurent M.
name: Rosenow, Felix
name: Strzelczyk, Adam
Publisher: name: figshare
Year: 2021
Subjects: subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Pharmacology
subject: Science Policy
subject: 69999 Biological Sciences not elsewhere classified

description: Additional file 1. Supplementary Table 1. Direct costs related to TSC manifestations.
Additional file 2 of Genomic epidemiology of methicillin-resistant and -susceptible Staphylococcus aureus from bloodstream infections
Creators: name: Smith, Joshua T.
name: Eckhardt, Elissa M.
name: Hansel, Nicole B.
name: Eliato, Tahmineh Rahmani
name: Martin, Isabella W.
name: Andam, Cheryl P.
Publisher: name: figshare
Year: 2021
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Evolutionary Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: Cancer
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: 60506 Virology

description: Additional file 2: Fig. S1. Assembly statistics of the S. aureus genomes
Stripe Ansatzs from Exactly Solved Models
Creators: name: Martin-Delgado, M. A.
name: Roncaglia, M.
name: Sierra, G.
Publisher: name: arXiv
Year: 2001
Subjects: subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: FOS: Physical sciences

description: Using the Boltzmann weights of classical Statistical Mechanics vertex models we define a new class of Tensor Product Ansatzs for 2D quantum lattice systems, characterized by a strong anisotropy, which gives rise to stripe like structures. In the case of the six vertex model we compute exactly, in the thermodynamic limit, the norm of the ansatz and other observables. Employing this ansatz we study the phase diagram of a Hamiltonian given by the sum of XXZ Hamiltonians along the legs coupled by an Ising term. Finally, we suggest a connection between the six and eight-vertex Anisotropic Tensor Product Ansatzs, and their associated Hamiltonians, with the smectic stripe phases recently discussed in the literature.
description: REVTEX4.b4 file, 10 pages, 2 ps Figures. Revised version to appear in PRB
Additional file 1 of Circulating and urinary microRNAs profile for predicting renal recovery from severe acute kidney injury
Creators: name: Phulkerd, Thanawat
name: Lertussavavivat, Tanat
name: Limothai, Umaporn
name: Peerapornratana, Sadudee
name: Kulvichit, Win
name: Lumlertgul, Nuttha
name: Tungsanga, Kriang
name: Eiam-Ong, Somchai
name: Avihingsanon, Yingyos
name: Srisawat, Nattachai
Publisher: name: figshare
Year: 2022
Subjects: subject: Biochemistry
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Chemical Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Marine Biology
subject: Science Policy

description: Additional file 1. Supplementary appendix. Table S1. Oligonucleotide primers used in this study. Table S2. Hospital course and outcomes by renal recovery. Risk reclassification using miR556-3p and clinical predictors compared with clinical predictors alone. Figure S1. The area under the curve (AUC) for prediction of renal recovery. Figure S2. Study design in virtual abstract.
Additional file 2 of Peer-to-peer health promotion interventions among African American men: a scoping review protocol
Creators: name: Wippold, Guillermo M.
name: Frary, Sarah Grace
name: Abshire, Demetrius
name: Wilson, Dawn K.
Publisher: name: figshare
Year: 2021
Subjects: subject: Medicine
subject: Biotechnology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Cancer
subject: Science Policy

description: Additional file 2. Supplementary Materials. Search Strategy.
Learning to Generate Questions by Learning What not to Generate
Creators: name: Liu, Bang
name: Zhao, Mingjun
name: Niu, Di
name: Lai, Kunfeng
name: He, Yancheng
name: Wei, Haojie
name: Xu, Yu
Publisher: name: arXiv
Year: 2019
Subjects: subject: Computation and Language (cs.CL)
subject: FOS: Computer and information sciences

description: Automatic question generation is an important technique that can improve the training of question answering, help chatbots to start or continue a conversation with humans, and provide assessment materials for educational purposes. Existing neural question generation models are not sufficient mainly due to their inability to properly model the process of how each word in the question is selected, i.e., whether repeating the given passage or being generated from a vocabulary. In this paper, we propose our Clue Guided Copy Network for Question Generation (CGC-QG), which is a sequence-to-sequence generative model with copying mechanism, yet employing a variety of novel components and techniques to boost the performance of question generation. In CGC-QG, we design a multi-task labeling strategy to identify whether a question word should be copied from the input passage or be generated instead, guiding the model to learn the accurate boundaries between copying and generation. Furthermore, our input passage encoder takes as input, among a diverse range of other features, the prediction made by a clue word predictor, which helps identify whether each word in the input passage is a potential clue to be copied into the target question. The clue word predictor is designed based on a novel application of Graph Convolutional Networks onto a syntactic dependency tree representation of each passage, thus being able to predict clue words only based on their context in the passage and their relative positions to the answer in the tree. We jointly train the clue prediction as well as question generation with multi-task learning and a number of practical strategies to reduce the complexity. Extensive evaluations show that our model significantly improves the performance of question generation and out-performs all previous state-of-the-art neural question generation models by a substantial margin.
description: Accepted by WWW 2019
Additional file 1 of Peer-to-peer health promotion interventions among African American men: a scoping review protocol
Creators: name: Wippold, Guillermo M.
name: Frary, Sarah Grace
name: Abshire, Demetrius
name: Wilson, Dawn K.
Publisher: name: figshare
Year: 2021
Subjects: subject: Medicine
subject: Biotechnology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Cancer
subject: Science Policy

description: Additional file 1. Preferred Reporting Items for Systematic reviews and Meta-Analyses extension for Scoping Reviews (PRISMA-ScR) checklist.
Canowindridae Young, Long & Ritchie 1992
Creators: name: Laan, Richard Van Der
Publisher: name: Zenodo
Year: 2018
Subjects: Biodiversity
Taxonomy
Animalia
Chordata
Sarcopterygii
Crossopterygii
Canowindridae

description: Family † Canowindridae Young, Long & Ritchie 1992
 † Canowindridae Young, Long & Ritchie 1992: 9 (family) † Canowindra Thomson 1973
description: Published as part of Laan, Richard Van Der, 2018, Family-group names of fossil fishes, pp. 1-167 in European Journal of Taxonomy 466 on page 92, DOI: 10.5852/ejt.2018.466, http://zenodo.org/record/5557557
The tan(beta) - M_H^\pm bound from inclusive semi-tauonic B-decays in the MSSM
Creators: name: Coarasa, J. A.
name: Jimenez, Ricardo A.
name: Sola, Joan
Publisher: name: arXiv
Year: 1997
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: We compute the O(alpha_s) SUSY-QCD corrections to the W and charged Higgs mediated inclusive semi-tauonic B-decay, B->tau antineutrino_tau X. Combining the SUSY contribution with the SM result obtained from the heavy quark effective field theory, plus ordinary QCD corrections, we find that the allowed region in the (tan(beta),M_H^\pm)-plane could be significantly modified by the short-distance supersymmetric effects. Since the sensitivity to the SUSY parameters other than mu (the higgsino mixing mass) is rather low, the following effective bound emerges for mu<0 at the 2 sigma level: tan(beta)~< 0.43 (M_H^\pm/GeV). Remarkably, for mu>0 there could be no bound at all. Finally, we provide a combined (tan(beta,M_H^\pm) exclusion plot using our B-meson results together with the recent data from top quark decays.
description: 15 pages, LaTeX, 1 table and 3 figs included as a separate file, full postscript version avaliable at ftp://ftp.ifae.es/preprint/ft/uabft407.ps . New comments and references added. Accepted version in Phys. Lett. B
Additional file 3 of Identification of molecular subtypes based on inflammatory response in lower-grade glioma
Creators: name: Lin, Wanzun
name: Gao, Jing
name: Zhang, Haojiong
name: Chen, Li
name: Qiu, Xianxin
name: Huang, Qingting
name: Hu, Jiyi
name: Kong, Lin
name: Lu, Jiade J.
Publisher: name: figshare
Year: 2022
Subjects: subject: Biochemistry
subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Biotechnology
subject: Chemical Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Cancer

description: Additional file 3. Validation of the repeatability of inflammation-based classification in CGGA (A), and Rembrandt (B) cohort.
MOESM3 of In vivo fluorescent cercariae reveal the entry portals of Cardiocephaloides longicollis (Rudolphi, 1819) Dubois, 1982 (Strigeidae) into the gilthead seabream Sparus aurata L.
Creators: name: Beest, Gabrielle Van
name: Villar-Torres, Mar
name: Raga, Juan
name: Montero, Francisco
name: Born-Torrijos, Ana
Publisher: name: figshare
Year: 2019
Subjects: subject: Biochemistry
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Pharmacology
subject: Sociology
subject: FOS: Sociology
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Cancer
subject: 60506 Virology
subject: Computational Biology

description: Additional file 3: Table S3. Evaluation of the effect of NB concentration treatment on cercarial activity.
On the efficiency of the evaluation of the primary cosmic ray composition using lateral distributions of air shower electromagnetic component
Creators: name: Raikin, Roman
name: Serebryakova, Tatyana
name: Volkov, Nikolay
name: Lagutin, Anatoly
Publisher: name: arXiv
Year: 2018
Subjects: subject: High Energy Astrophysical Phenomena (astro-ph.HE)
subject: FOS: Physical sciences

description: New analysis of lateral distributions (LD) of electrons, muons and charged particles in extensive air showers generated by $10^{15}-10^{19}$ eV cosmic rays has been made with respect to the scaling formalism for LD and air shower universality paradigm. It is found that lateral distributions of electrons and muons, when considered separately, are well described by one-parametric scaling functions, while for the charged particles mixture distributions the scaling description is not accurate in radial distance range where electrons and muons give a comparable contribution to the local particle densities. The use of scaling formalism enables enhancing the electron/muon separation capabilities and, when combined with theoretically motivated air shower universality concept, provides robust mass composition estimates. The proposed approach could be implemented for the present and future (multi-) hybrid air shower observations, especially in realizing the potential of Auger and Telescope Array observatories upgrades, as well as for re-analysis and cross-calibration of the data collected from different air shower arrays in a broad primary energy range.
description: Presented at 26th Extended European Cosmic Ray Symposium (http://ecrs18.asu.ru). Submitted to Journal of Physics Conference Series
Additional file 1 of Modelling hospital outcome: problems with endogeneity
Creators: name: Moran, John L.
name: Santamaria, John D.
name: Duke, Graeme J.
Publisher: name: figshare
Year: 2021
Subjects: subject: Medicine
subject: Biotechnology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Science Policy

description: Additional file 1.
Additional file 1: of Organ system network analysis and biological stability in critically ill patients
Creators: name: Asada, Toshifumi
name: Doi, Kent
name: Inokuchi, Ryota
name: Hayase, Naoki
name: Yamamoto, Miyuki
name: Morimura, Naoto
Publisher: name: figshare
Year: 2019
Subjects: subject: Medicine
subject: Molecular Biology
subject: Developmental Biology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Computational Biology

description: Figure S1. Schematic view of methodology. (PDF 79 kb)
Josephson-Junction Qubits with Controlled Couplings
Creators: name: Makhlin, Yuriy
name: Schoen, Gerd
name: Shnirman, Alexander
Publisher: name: arXiv
Year: 1998
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: Low-capacitance Josephson junctions, where Cooper pairs tunnel coherently while Coulomb blockade effects allow the control of the total charge, provide physical realizations of quantum bits (qubits), with logical states differing by one Cooper-pair charge on an island. The single- and two-bit operations required for quantum computation can be performed by applying a sequence of gate voltages. A basic design, described earlier [cond-mat/9706016], is sufficient to demonstrate the principles, but requires a high precision time control, and residual two-bit interactions introduce errors. Here we suggest a new nano-electronic design, close to ideal, where the Josephson junctions are replaced by controllable SQUIDs. This relaxes the requirements on the time control and system parameters substantially, and the two-bit coupling can be switched exactly between zero and a non-zero value for arbitrary pairs. The phase coherence time is sufficiently long to allow a series of operations.
description: RevTex, 5 pages, 3 figures, see also cond-mat/9801125
Comparing a few distributions of transverse momenta in high energy collisions
Creators: name: Wang, Qi
name: Yang, Pei-Pin
name: Liu, Fu-Hu
Publisher: name: arXiv
Year: 2018
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: High Energy Physics - Experiment (hep-ex)
subject: Nuclear Experiment (nucl-ex)
subject: Nuclear Theory (nucl-th)
subject: FOS: Physical sciences

description: Transverse momentum spectra of particles produced in high energy collisions are very important due to their relations to the excitation degree of interacting system. To describe the transverse momentum spectra, one can use more than one probability density functions of transverse momenta, which are simply called the functions or distributions of transverse momenta in some cases. In this paper, a few distributions of transverse momenta in high energy collisions are compared with each other in terms of plots to show some quantitative differences. Meanwhile, in the framework of Tsallis statistics, the distributions of momentum components, transverse momenta, rapidities, and pasudorapidities are obtained according to the analytical and Monte Carlo methods. These analyses are useful to understand carefully different distributions in high energy collisions.
description: 11 pages, 7 figures. Results in Physics, Accepted
Additional file 1 of The ROX index as a predictor of standard oxygen therapy outcomes in thoracic trauma
Creators: name: Cornillon, Adrien
name: Balbo, Juliette
name: Coffinet, Julien
name: Floch, Thierry
name: Bard, Mathieu
name: Giordano-Orsini, Guillaume
name: Malinovsky, Jean-Marc
name: Kanagaratnam, Lukshe
name: Michelet, Daphne
name: Legros, Vincent
Publisher: name: figshare
Year: 2021
Subjects: subject: Medicine
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Science Policy
subject: Hematology

description: Additional file 1.
Debye screening and Meissner effect in a three-flavor color superconductor
Creators: name: Rischke, Dirk H.
Publisher: name: arXiv
Year: 2000
Subjects: subject: Nuclear Theory (nucl-th)
subject: Superconductivity (cond-mat.supr-con)
subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: I compute the gluon self-energy in a color superconductor with three flavors of massless quarks, where condensation of Cooper pairs breaks the color and flavor SU(3)_c x U(3)_V x U(3)_A symmetry of QCD to the diagonal subgroup SU(3)_{c+V}. At zero temperature, all eight electric gluons obtain a Debye screening mass, and all eight magnetic gluons a Meissner mass. The Debye as well as the Meissner masses are found to be equal for the different gluon colors. These masses determine the coefficients of the kinetic terms in the effective theory for the low-energy degrees of freedom. Their values agree with those obtained by Son and Stephanov.
description: 10 pages, 1 figure (eps)
Additional file 1 of Ex vivo expanded human regulatory T cells modify neuroinflammation in a preclinical model of Alzheimer’s disease
Creators: name: Faridar, Alireza
name: Vasquez, Matthew
name: Thome, Aaron D.
name: Yin, Zheng
name: Xuan, Hui
name: Wang, Jing Hong
name: Wen, Shixiang
name: Li, Xuping
name: Thonhoff, Jason R.
name: Zhao, Weihua
name: Zhao, Hong
name: Beers, David R.
name: Wong, Stephen T. C.
name: Masdeu, Joseph C.
name: Appel, Stanley H.
Publisher: name: figshare
Year: 2022
Subjects: subject: Immunology
subject: FOS: Clinical medicine

description: Additional file 1. Supplementary Figure 1: Characteristics of ex vivo expanded Tregs. Supplementary Figure 2: The presence of Tregs in the frontal cortex following peripheral administration. Supplementary Figure 4: Inflammation gene expressions in the frontal cortex.
Hot B violation, the lattice, and hard thermal loops
Creators: name: Arnold, Peter
Publisher: name: arXiv
Year: 1997
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: High Energy Physics - Lattice (hep-lat)
subject: FOS: Physical sciences

description: It has recently been argued that the rate per unit volume of baryon number violation (topological transitions) in the hot, symmetric phase of electroweak theory is of the form $ηα_w^5 T^4$ in the weak-coupling limit, where $η$ is a non-perturbative numerical coefficient. Over the past several years, there have been attempts to extract the rate of baryon number violation from real-time simulations of classical thermal field theory on a spatial lattice. Unfortunately, the coefficient $η$ will not be the same for classical lattice theories and the real quantum theory. However, by analyzing the appropriate effective theory on the lattice using the method of hard thermal loops, I show that the only obstruction to precisely relating the rates in the real and lattice theories is the fact that the long-distance physics on the lattice is not rotationally invariant. (This is unlike Euclidean-time measurements, where rotational invariance is always recovered in the continuum limit.) I then propose how this violation of rotational invariance can be eliminated - and the real B violation rate measured - by choosing an appropriate lattice Hamiltonian. I also propose a rough measure of the systematic error to be expected from using simpler, unimproved Hamiltonians. As a byproduct of my investigation, the plasma frequency and Debye mass are computed for classical thermal field theory on the lattice.
description: 43 pages, Latex, uses revtex, epsf macro packages
Additional file 1 of Systematic truncations of chromosome 4 and their responses to antifungals in Candida albicans
Creators: name: Uddin, Wasim
name: Dhabalia, Darshan
name: Prakash, S. M. Udaya
name: Kabir, M. Anaul
Publisher: name: figshare
Year: 2021
Subjects: subject: Biochemistry
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Molecular Biology
subject: Pharmacology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Ecology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology

description: Additional file 1: Supplementary Table S1. Minimum inhibitory concentration (MIC) for the strains carrying truncated chromosome 4. Supplementary Fig. S1. (A) Schematic diagram of plasmid pKA05 [25]. This plasmid was used as a backbone plasmid for generating truncation constructs. Mapping sequences (MS) from truncation sites of chromosome 4 were inserted at K-Xh (KpnI-XhoI) and the resulting plasmids were digested with KpnI-SacI and transformed into Candida. (B) Schematic diagram of PCR verification for chromosomal truncation. Primers P1 and P2 were designed from upstream of MS of chromosome 4 and URA3 flipper, respectively. The primers amplify PCR product of expected size only when truncation occurs at the intended site on Chr4. PBT, plasmid-borne Candida telomere. Supplementary Fig. S2. Disc diffusion assay for strains carrying truncated homologue of Chromosome 4. WT, wild type strain CAF4-2; Trn1 to Trn8, strains carrying truncations at 969.905 kb, 1002.852 kb; 1102.087 kb; 1201.989 kb; 1301.783 kb; 1369.883 kb; 1529.969 kb; 1542.907 kb positions on Chr4. Cells were poured along with molten 0.7% agar and disc containing (A) fluconazole (25 μg); (B) clotrimazole (10 μg); (C) itraconazole (10 μg); (D) ketokonazole (10 μg); (E) miconazole (30 μg); (F) amphotericin B (50 μg); (G) nystatin (50 μg) were placed on the plate (Himedia, Mumbai, India). Photographs were taken after 24 hr.
Thomas-Fermi-Dirac-von Weizsacker hydrodynamics in laterally modulated electronic systems
Creators: name: van Zyl, B. P.
name: Zaremba, E.
Publisher: name: arXiv
Year: 1998
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: We have studied the collective plasma excitations of a two-dimensional electron gas with an arbitrary lateral charge-density modulation. The dynamics is formulated using a previously developed hydrodynamic theory based on the Thomas-Fermi-Dirac-von Weizsacker approximation. In this approach, both the equilibrium and dynamical properties of the periodically modulated electron gas are treated in a consistent fashion. We pay particular attention to the evolution of the collective excitations as the system undergoes the transition from the ideal two-dimensional limit to the highly-localized one-dimensional limit. We also calculate the power absorption in the long-wavelength limit to illustrate the effect of the modulation on the modes probed by far-infrared (FIR) transmission spectroscopy.
description: 27 page Revtex file, 15 Postscript figures
Critical dynamics of the Kuramoto model on sparse random networks
Creators: name: Juhász, R.
name: Kelling, J.
name: Ódor, G.
Publisher: name: arXiv
Year: 2019
Subjects: subject: Statistical Mechanics (cond-mat.stat-mech)
subject: Disordered Systems and Neural Networks (cond-mat.dis-nn)
subject: FOS: Physical sciences

description: We consider the Kuramoto model on sparse random networks such as the Erdős-Rényi graph or its combination with a regular two-dimensional lattice and study the dynamical scaling behavior of the model at the synchronization transition by large-scale, massively parallel numerical integration. By this method, we obtain an estimate of critical coupling strength more accurate than obtained earlier by finite-size scaling of the stationary order parameter. Our results confirm the compatibility of the correlation-size and the temporal correlation-length exponent with the mean-field universality class. However, the scaling of the order parameter exhibits corrections much stronger than those of the Kuramoto model with all-to-all coupling, making thereby an accurate estimate of the order-parameter exponent hard. We find furthermore that, as a qualitative difference to the model with all-to-all coupling, the effective critical exponents involving the order-parameter exponent, such as the effective decay exponent characterizing the critical desynchronization dynamics show a non-monotonic approach toward the asymptotic value. In the light of these results, the technique of finite-size scaling of limited size data for the Kuramoto model on sparse graphs has to be treated cautiously.
description: 13 pages, 8 figures
Additional file 4 of Identification of molecular subtypes based on inflammatory response in lower-grade glioma
Creators: name: Lin, Wanzun
name: Gao, Jing
name: Zhang, Haojiong
name: Chen, Li
name: Qiu, Xianxin
name: Huang, Qingting
name: Hu, Jiyi
name: Kong, Lin
name: Lu, Jiade J.
Publisher: name: figshare
Year: 2022
Subjects: subject: Biochemistry
subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Biotechnology
subject: Chemical Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Cancer

description: Additional file 4. Illustration of the seven-step cancer-immunity cycle. The seven-step cancer-immunity cycle encompasses the production of tumor antigens (step 1), presentation of tumor antigen (step 2), priming, and activation (step 3), T cells transfer to tumors (step 4), immune cell infiltration into tumors (step 5), tumor cell detection by T cells (step 6), and tumor cells apoptosis (step 7).
Superconducting correlations in ultra-small metallic grains
Creators: name: Tian, Guang-Shan
name: Tang, Lei-Han
name: Chen, Qing-Hu
Publisher: name: arXiv
Year: 2000
Subjects: subject: Superconductivity (cond-mat.supr-con)
subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: To describe the crossover from the bulk BCS superconductivity to a fluctuation-dominated regime in ultrasmall metallic grains, new order parameters and correlation functions, such as ``parity gap'' and ``pair-mixing correlation function'', have been recently introduced. In this paper, we discuss the small-grain behaviour of the Penrose-Onsager-Yang off-diagonal long-range order (ODLRO) parameter in a pseudo-spin representation. Relations between the ODLRO parameter and those mentioned above are established through analytical and numerical calculations.
description: 7 pages, 1 figure
MOESM2 of In vivo fluorescent cercariae reveal the entry portals of Cardiocephaloides longicollis (Rudolphi, 1819) Dubois, 1982 (Strigeidae) into the gilthead seabream Sparus aurata L.
Creators: name: Beest, Gabrielle Van
name: Villar-Torres, Mar
name: Raga, Juan
name: Montero, Francisco
name: Born-Torrijos, Ana
Publisher: name: figshare
Year: 2019
Subjects: subject: Biochemistry
subject: Medicine
subject: Cell Biology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Cancer
subject: Computational Biology

description: Additional file 2: Table S2. Evaluation of the effect of different NB concentrations on cercarial survival.
title: Leveraging Machine Learning for the Analysis and Prediction of Influenza A Virus
Creators: name: Xu, Yanhua
Publisher: name: University of Liverpool Repository
Year: 2024

description: Influenza, commonly known as flu, is a respiratory disease that poses a significant challenge to global public health due to its high prevalence and potential for serious health complications. The disease is caused by influenza viruses, among which influenza A viruses are of particular concern. These viruses are known for their rapid transmission, potential to cause severe health issues, and frequent mutations, which underscore the need for ongoing research and surveillance. A key aspect of managing influenza outbreaks includes understanding host origins, antigenic properties, and the ability of influenza A viruses to transmit between species, as this knowledge is critical in forecasting outbreaks and developing effective vaccines. 

Traditional approaches, such as hemagglutination inhibition assays for antigenicity assessment and phylogenetic analysis to determine genetic relationships, host origins and subtypes, have been fundamental in understanding influenza viruses. These methods, while informative, often face limitations in terms of time, resources, and the ability to keep pace with the rapid evolutionary changes of viruses. To mitigate these limitations, this thesis uses advanced machine learning techniques to analyse critical protein sequence data from influenza A viruses, offering an alternative perspective for unravelling the complexities of influenza, and potentially opening new avenues for analysis without strict reliance on prior biological knowledge.

The core of the thesis is the application and refinement of predictive models to determine host origins, subtypes, and antigenic relationships of influenza A viruses. These models are evaluated comprehensively, considering factors such as the impact of incomplete sequences, performance across various host taxonomies and individual hosts, as well as the influence of reference databases on model performance. This evaluation illuminates the potential of machine learning to enhance our understanding of influenza A viruses in real-world scenarios, pointing out the ongoing importance of this research in public health.
Theory of coherent acoustic phonons in InGaN/GaN multi-quantum wells
Creators: name: Sanders, G. D.
name: Stanton, C. J.
name: Kim, Chang-Sub
Publisher: name: arXiv
Year: 2001
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: A microscopic theory for the generation and propagation of coherent LA phonons in pseudomorphically strained wurzite (0001) InGaN/GaN multi-quantum well (MQW) p-i-n diodes is presented. The generation of coherent LA phonons is driven by photoexcitation of electron-hole pairs by an ultrafast Gaussian pump laser and is treated theoretically using the density matrix formalism. We use realistic wurzite bandstructures taking valence-band mixing and strain-induced piezo- electric fields into account. In addition, the many-body Coulomb ineraction is treated in the screened time-dependent Hartree-Fock approximation. We find that under typical experimental conditions, our microscopic theory can be simplified and mapped onto a loaded string problem which can be easily solved.
description: 20 pages, 17 figures
A Solution to the $μ$ Problem in Gauge-mediated Supersymmetry-breaking Models
Creators: name: Yanagida, T.
Publisher: name: arXiv
Year: 1997
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: We point out that a sector required to set the cosmological constant to zero in gauge-mediated supersymmetry-breaking models naturally produces a supersymmetry-invariant mass ($μ$ term) for Higgs doublets of the order of the electroweak scale. Since this new sector preserves the supersymmetry, it does not generate supersymmetry-breaking masses for the Higgs doublets and thus the $μ$ problem is solved.
description: Latex file
Free immersions and panelled web 4-manifolds
Creators: name: Kalafat, Mustafa
Publisher: name: arXiv
Year: 2018
Subjects: subject: Differential Geometry (math.DG)
subject: Geometric Topology (math.GT)
subject: FOS: Mathematics
subject: 53C38, 57R42

description: We show that if a compact, oriented 4-manifold admits a coassociative-free immersion into the Euclidean 7-space then its Euler characteristic and signature vanish. Moreover, in the spin case the Gauss map is contractible, so that the immersed manifold is parallelizable. The proof makes use of homotopy theory in particular obstruction theory. As a further application we prove a non-existence result for some infinite families of 4-manifolds that can not be addressed previously. We give concrete examples of parallelizable 4-manifolds with complicated non-simply-connected topology.
description: 14 pages, 1 figure, To appear in Internat. J. Math
Additional file 2 of The effect of a 24-week training focused on activities of daily living, muscle strengthening, and stability in idiopathic inflammatory myopathies: a monocentric controlled study with follow-up
Creators: name: Špiritović, Maja
name: Heřmánková, Barbora
name: Oreská, Sabína
name: Štorkánová, Hana
name: Růžičková, Olga
name: Vernerová, Lucia
name: Klein, Martin
name: Kubínová, Kateřina
name: Šmucrová, Hana
name: Rathouská, Adéla
name: Česák, Petr
name: Komarc, Martin
name: Bunc, Václav
name: Pavelka, Karel
name: Šenolt, Ladislav
name: Mann, Heřman
name: Vencovský, Jiří
name: Tomčík, Michal
Publisher: name: figshare
Year: 2021
Subjects: subject: Medicine
subject: Physiology
subject: FOS: Biological sciences
subject: Ecology
subject: Immunology
subject: FOS: Clinical medicine
subject: 111714 Mental Health
subject: FOS: Health sciences

description: Additional file 2: Table S1. Primary and secondary outcomes assessing muscle strength, endurance, global function/disability, depression, stability, metabolism and muscle fitness. Table S2. Primary and secondary outcomes assessing muscle strength in individual muscle groups, fatigue, and quality of life. Table S3. Perceived exertion and disease activity assessed by systemic levels of markers for inflammation and muscle damage. Table S4. Relative mRNA expression of pro-inflammatory cytokines and chemokines in muscle biopsy prior and after the intervention (n=7).