cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Meson Spectroscopy at COMPASS
Creators: name: Grube, Boris
Publisher: name: arXiv
Year: 2016
Subjects: subject: High Energy Physics - Experiment (hep-ex)
subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: The goal of the COMPASS experiment at CERN is to study the structure and dynamics of hadrons. The two-stage spectrometer used by the experiment has large acceptance and covers a wide kinematic range for charged as well as neutral particles and can therefore measure a wide range of reactions. The spectroscopy of light mesons is performed with negative (mostly $π^-$) and positive ($p$, $π^+$) hadron beams with a momentum of 190 GeV/$c$. The light-meson spectrum is measured in different final states produced in diffractive dissociation reactions with squared four-momentum transfer $t$ to the target between 0.1 and 1.0 $(\text{GeV}/c)^2$. The flagship channel is the $π^-π^-π^+$ final state, for which COMPASS has recorded the currently world's largest data sample. These data not only allow to measure the properties of known resonances with high precision, but also to observe new states. Among these is a new axial-vector signal, the $a_1(1420)$, with unusual properties. Novel analysis techniques have been developed to extract also the amplitude of the $π^-π^+$ subsystem as a function of $3π$ mass from the data. The findings are confirmed by the analysis of the $π^-π^0π^0$ final state.
description: 7 pages, 12 figures, proceedings of the "14th International Workshop on Meson Production, Properties and Interaction" (MESON2016), Krak\'ow, Poland, June 02-07, 2016
Distributed execution of bioinformatics tools on Apache Spark with ADAM and Cannoli
Creators: name: Heuer, Michael
name: Paschall, Justin
name: Nothaft, Frank
Publisher: name: F1000 Research Limited
Year: 2020

description: As the cost of sequencing continues to decline, the core algorithms and tools used to analyze genomic data must scale to handle larger data volumes. Given that writing efficient distributed algorithms is difficult, most bioinformatics tools scale to multiple threads on a single cluster node if parallelizable at all. Thus it is common in workflows to scatter and gather data in an attempt to scale the workflow. However, splitting flat file formats in an ad-hoc fashion does not take advantage of data locality on a cluster and does not balance execution time on each cluster node well.

ADAM provides a GenomicDataset abstraction for genomic data types (e.g. aligned reads, read fragments, features, sequences, variants, and genotypes) over Apache Spark RDDs, Datasets, and DataFrames. The GenomicDataset API provides support for piping the underlying genomic data out to a single node process through the use of an API that builds on Apache Spark's RDD.pipe API.

A command line application, library, and interactive shell called Cannoli was developed on top of the ADAM GenomicDataset pipe API to parallelize commonly used bioinformatics tools. Currently, Cannoli supports aligning reads with Bowtie, Bowtie2, BWA, Minimap2, and SNAP; calling variants with FreeBayes and Samtools mpileup; normalizing variants with BCFtools norm and vt normalize; and annotating variant effects with SnpEff and Ensembl Variant Effect Predictor (VEP).

Cannoli provides distribution of files across the cluster using SparkFiles mechanism (useful for e.g. BWA indexes), calling external process installed locally, or via Docker, or Singularity (mounting files to the container as necessary), and a functional API for interactive analysis in cannoli-shell or workbooks such as Jupyter, Zeppelin, or Spark Notebook.

By using Cannoli, we can accelerate alignment with BWA to take approximately 10—15 minutes when running on a 1,024 core cluster. We can couple this rapid alignment pipeline with the fast preprocessing stages in ADAM and the variant calling stages in Avocado to call variants on a 60x coverage WGS dataset in approximately 45 minutes on a 1,024 core cluster.
Syzygies of Quadratic Veronese Embedding
Creators: name: Netay, I. V.
Publisher: name: arXiv
Year: 2016
Subjects: subject: Algebraic Geometry (math.AG)
subject: Representation Theory (math.RT)
subject: FOS: Mathematics

description: In this work we explicitly calculate syzygies of quadratic Veronese embedding $\mathbb{P}(V)\subset\mathbb{P}(\operatorname{Sym}^2V)$ as representations of the group $\operatorname{GL}(V)$. Also resolutions of the sheaves $\mathscr{O}_{\mathbb{P}(V)}(i)$ are constructed in the category $D(\mathbb{P}(\operatorname{Sym}^2V))$.
description: 20 pages, 6 figures
Decentralisation and development in Sri Lanka : a consolidated model of public management
Creators: name: Samaratunge, Ramanie
Publisher: name: Monash University
Year: 2021

description: This thesis was scanned from the print manuscript for digital preservation and is copyright the author.
 Researchers can access this thesis by asking their local university, institution or public library to
 make a request on their behalf. Monash staff and postgraduate students can use the link in the Reference field.
eDGAR and PhenPath resources join the Bioschemas Community
Creators: name: Babbi, Giulia
name: Garcia, Leyla
name: Gray, Alasdair
name: Martelli, Pier Luigi
name: Casadio, Rita
Publisher: name: F1000 Research Limited
Year: 2020

description: Modern sequencing technologies allow dissecting the genetic component of phenotypic traits, particularly in relation to diseases. The number of known associations between genes and diseases or phenotypes is increasing; however, the information is still sparse among different resources. The integrative analysis of different data is fundamental for the elucidation of the molecular mechanisms at the basis of the pathogenesis. To support this type of research, we recently developed eDGAR (edgar.biocomp.unibo.it) and PhenPath (phenpath.biocomp.unibo.it).

eDGAR is a database collecting and organizing data on gene/disease associations as derived from OMIM, Humsavar and ClinVar. eDGAR lists 2672 diseases related to 3658 different genes, for a total of 5729 gene-disease associations. eDGAR provides analysis on the sets of genes involved in the same disease, in terms of physical, functional, and regulatory interactions, as derived from PDB, BIOGRID, STRING, CORUM, and TRRUST. Moreover, eDGAR exploits the network-based enrichment algorithm NET-GE (net-ge.biocomp.unibo.it/enrich) to provide a functional characterization of these gene sets in terms of Gene Ontology terms and Pathways from KEGG and Reactome. With a similar idea, PhenPath extends the analysis to phenotypes associated with different diseases following the Human Phenotype Ontology and of the OMIM Clinical Synopsys. With our resource, researchers and physicians can easily associate genes to more than 7000 phenotypes and characterize biological pathways/processes for a deeper understanding of molecular mechanisms and possible cures.

To make resources fully exploitable, to improve the FAIRness of the data and analyses they provide, we marked them up with Bioschemas markup; an extension of the Schema.org vocabulary for the life sciences. The inclusion of Bioschemas markup enables data interoperability and findability, allowing search engines and other resources to index and retrieve relevant information.

Both resources have been endowed with Bioschemas markup conforming with profiles for different entities. In particular:
1) Dataset, DataCatalog, Gene, and Protein are marked-up for eDGAR
2) Dataset, DataCatalog, and Phenotypes are marked up for PhenPath.

The latest versions of the Bioschemas profiles have been adopted; in particular, this work represents the first adoption of the Phenotype profile. The profile for Phenotype was developed in a preliminary draft form in 2018, and its further developments are now a topic for Bioschemas community, particularly in relation to the Schema.org type MedicalSignOrSymptom. The PhenPath implementation provides a test for the efficacy and the completeness of the current Phenotype profile and will help the definition of the requirements for its improvement, following the community needs and suggestions.
Generalized Zermelo navigation on Hermitian manifolds under mild wind
Creators: name: Aldea, Nicoleta
name: Kopacz, Piotr
Publisher: name: arXiv
Year: 2016
Subjects: subject: Differential Geometry (math.DG)
subject: FOS: Mathematics
subject: 53B20, 53C21, 53C22, 53C60, 49J15, 49J53

description: We generalize and study the Zermelo navigation problem on Hermitian manifolds in the presence of a perturbation $W$ determined by a mild complex velocity vector field $||W(z)||_h
description: 19 pages
The specification, estimation and forecasting of trends in economic time series
Creators: name: Saligari, Grant Roderick
Publisher: name: Monash University
Year: 2021

description: This thesis was scanned from the print manuscript for digital preservation and is copyright the author.
 Researchers can access this thesis by asking their local university, institution or public library to
 make a request on their behalf. Monash staff and postgraduate students can use the link in the Reference field.
Matrix Product State for Higher-Order Tensor Compression and Classification
Creators: name: Bengua, Johann A.
name: Phien, Ho N.
name: Tuan, Hoang D.
name: Do, Minh N.
Publisher: name: arXiv
Year: 2016
Subjects: subject: Machine Learning (stat.ML)
subject: Computer Vision and Pattern Recognition (cs.CV)
subject: Data Structures and Algorithms (cs.DS)
subject: FOS: Computer and information sciences

description: This paper introduces matrix product state (MPS) decomposition as a new and systematic method to compress multidimensional data represented by higher-order tensors. It solves two major bottlenecks in tensor compression: computation and compression quality. Regardless of tensor order, MPS compresses tensors to matrices of moderate dimension which can be used for classification. Mainly based on a successive sequence of singular value decompositions (SVD), MPS is quite simple to implement and arrives at the global optimal matrix, bypassing local alternating optimization, which is not only computationally expensive but cannot yield the global solution. Benchmark results show that MPS can achieve better classification performance with favorable computation cost compared to other tensor compression methods.
description: 12 pages, 4 figures
The effects of relationship dimensions on commitment in interpersonal and interorganisational relationships : a cross-cultural comparison of Australia and China
Creators: name: Rodrigo, Elaine M.
Publisher: name: Monash University
Year: 2021

description: This thesis was scanned from the print manuscript for digital preservation and is copyright the author.
 Researchers can access this thesis by asking their local university, institution or public library to
 make a request on their behalf. Monash staff and postgraduate students can use the link in the Reference field.
Natural operations on holomorphic forms
Creators: name: Navarro, Alberto
name: Navarro, Jose
name: Prieto, Carlos Tejero
Publisher: name: arXiv
Year: 2016
Subjects: subject: Complex Variables (math.CV)
subject: Differential Geometry (math.DG)
subject: FOS: Mathematics
subject: 32W99, 58J99

description: We prove that the only natural differential operations between holomorphic forms on a complex manifold are those obtained using linear combinations, the exterior product and the exterior differential. In order to accomplish this task we first develop the basics of the theory of natural holomorphic bundles over a fixed manifold, making explicit its Galoisian structure by proving a categorical equivalence {\it à la Galois}.
description: 21 pages
title: Motiviert begonnen, erfolgreich beendet?
title: Prädiktive Kraft der Studienwahlmotivation für Noten im Lehramtsstudium
Creators: name: Theurer, Caroline
name: Bleck, Victoria
name: Deistler, Katharina
name: Lipowsky, Frank
Publisher: name: Universität Kassel
Year: 2021
Subjects: subject: Noten
subject: Studienwahlmotivation
subject: FEMOLA
subject: Lehramtsstudierende
subject: Lehrerbildung
subject: grades
subject: pre-service teachers
subject: career choice motivation
subject: teacher education
subject: 370
subject: Notengebung
subject: Studienfachwahl
subject: Motivation
subject: Lehramtsstudium
subject: Lehrerbildung

description: Gefördert im Rahmen eines Open-Access-Transformationsvertrags mit dem Verlag
Experimental pre-assessing entanglement in Gaussian states mixing
Creators: name: Pecoraro, A.
name: Buono, D.
name: Nocerino, G.
name: Porzio, A.
name: Olivares, S.
name: Paris, M. G. A.
Publisher: name: arXiv
Year: 2016
Subjects: subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: We suggest and demonstrate a method to assess entanglement generation schemes based on mixing of Gaussian states at a beam splitter (BS). Our method is based on the fidelity criterion and represents a tool to analyze the effect of losses and noise before the BS in both symmetric and asymmetric channels with and without thermal effects. More generally, our scheme allows one to pre-assess entanglement resources and to optimize the design of BS-based schemes for the generation of continuous variable entanglement.
description: 10 pages, 15 figures
Galaxy Zoo: Morphological Classifications for 120,000 Galaxies in HST Legacy Imaging
Creators: name: Willett, Kyle W.
name: Galloway, Melanie A.
name: Bamford, Steven P.
name: Lintott, Chris J.
name: Masters, Karen L.
name: Scarlata, Claudia
name: Simmons, B. D.
name: Beck, Melanie
name: Cardamone, Carolin N.
name: Cheung, Edmond
name: Edmondson, Edward M.
name: Fortson, Lucy F.
name: Griffith, Roger L.
name: Haeussler, Boris
name: Han, Anna
name: Hart, Ross
name: Melvin, Thomas
name: Parrish, Michael
name: Schawinski, Kevin
name: Smethurst, R. J.
name: Smith, Arfon M.
Publisher: name: arXiv
Year: 2016
Subjects: subject: Astrophysics of Galaxies (astro-ph.GA)
subject: Cosmology and Nongalactic Astrophysics (astro-ph.CO)
subject: FOS: Physical sciences

description: We present the data release paper for the Galaxy Zoo: Hubble (GZH) project. This is the third phase in a large effort to measure reliable, detailed morphologies of galaxies by using crowdsourced visual classifications of colour composite images. Images in GZH were selected from various publicly-released Hubble Space Telescope Legacy programs conducted with the Advanced Camera for Surveys, with filters that probe the rest-frame optical emission from galaxies out to $z \sim 1$. The bulk of the sample is selected to have $m_{I814W} < 23.5$,but goes as faint as $m_{I814W} < 26.8$ for deep images combined over 5 epochs. The median redshift of the combined samples is $z = 0.9 \pm 0.6$, with a tail extending out to $z \sim 4$. The GZH morphological data include measurements of both bulge- and disk-dominated galaxies, details on spiral disk structure that relate to the Hubble type, bar identification, and numerous measurements of clump identification and geometry. This paper also describes a new method for calibrating morphologies for galaxies of different luminosities and at different redshifts by using artificially-redshifted galaxy images as a baseline. The GZH catalogue contains both raw and calibrated morphological vote fractions for 119,849 galaxies, providing the largest dataset to date suitable for large-scale studies of galaxy evolution out to $z \sim 1$.
description: 32 pages, 14 figures. Accepted to MNRAS. Full data tables are available electronically from journal or https://data.galaxyzoo.org
Conformal invariance in driven diffusive systems at high currents
Creators: name: Karevski, D.
name: Schütz, G. M.
Publisher: name: arXiv
Year: 2016
Subjects: subject: Statistical Mechanics (cond-mat.stat-mech)
subject: Probability (math.PR)
subject: FOS: Physical sciences
subject: FOS: Mathematics
subject: 82C26, 82C27, 82C22

description: We consider space-time correlations in driven diffusive systems which undergo a fluctuation into a regime with an atypically large current or dynamical activity. For a single conserved mass we show that the spatio-temporal density correlations in one space dimension are given by conformally invariant field theories with central charge $c=1$, corresponding to a ballistic universality class with dynamical exponent $z=1$. We derive a phase diagram for atypical behaviour that besides the conformally invariant regime exhibits a regime of phase separation for atypically low current or activity. On the phase transition line, corresponding to typical behaviour, the dynamics belongs to the Kardar-Parisi-Zhang universality class with dynamical exponent $z=3/2$, except for a diffusive point with $z=2$. We demonstrate the validity of the theory for the one-dimensional asymmetric simple exclusion process with both periodic and open boundaries by exact results for the dynamical structure in the limit of maximal current.
description: 5 pages, 2 figures. Revision with typo in Eq. (1) corrected and some cosmetic changes
Otto Baumberger – Kunst und Werbung im Wolfsberg
Creators: name: Hesse, Jochen
Publisher: name: Verlag Karl Schwegler AG
Year: 2013
Subjects: subject: 700 Künste, Bildende und angewandte Kunst
subject: 900 Geschichte und Geografie
subject: Zürich
subject: Baumberger, Otto
subject: Kunst
subject: Grafik
subject: Plakat
subject: Postkarte
subject: J. E. Wolfensberger AG

description: In: Zeitschrift für Schweizerische Archäologie und Kunstgeschichte ZAK 70:4 (2013), S. 247-258
description: Otto Baumberger war einer der herausragenden Schweizer Werbegrafiker des ersten Drittels des 20. Jahrhunderts. Bereits als 23-Jährigen wurde ihm 1912 die künstlerische Leitung der Lithographischen Anstalt Wolfensberger in Zürich anvertraut. Zu seinen Aufgaben gehörte das Gestalten von Postkartenserien und Plakaten sowie der sogenannten Wolfsbergdrucke in Form von Künstlerlithografien und Reproduktionsgrafiken von Gemälden. Für die Firmen Grieder und PKZ führte er grosse Reklamekampagnen aus. Für jeden Plakatauftrag suchte Baumberger eine spezifische Bildsprache und verzichtete damit auf einen persönlichen Stil, was ihn zu einem eigentlichen Vorgänger der heutigen Werbegrafiker werden liess. Auch nach seinem Ausscheiden aus der Firma blieb er dem Unternehmen durch die Übernahme von Aufträgen verbunden.
Aspects of diagnostic testing of disturbances in econometric regression models
Creators: name: Rahman, Shahidur
Publisher: name: Monash University
Year: 2021

description: This thesis was scanned from the print manuscript for digital preservation and is copyright the author.
 Researchers can access this thesis by asking their local university, institution or public library to
 make a request on their behalf. Monash staff and postgraduate students can use the link in the Reference field.
Radio emission in Mercury magnetosphere
Creators: name: Varela, J.
name: Reville, V.
name: Brun, A. S.
name: Pantellini, F.
name: Zarka, P.
Publisher: name: arXiv
Year: 2016
Subjects: subject: Earth and Planetary Astrophysics (astro-ph.EP)
subject: Space Physics (physics.space-ph)
subject: FOS: Physical sciences

description: Context: Active stars possess magnetized wind that has a direct impact on planets that can lead to radio emission. Mercury is a good test case to study the effect of the solar wind and interplanetary magnetic field on radio emission driven in the planet magnetosphere. Such studies could be used as proxies to characterize the magnetic field topology and intensity of exoplanets. Aims: The aim of this study is to quantify the radio emission in the Hermean magnetosphere. Methods: We use the MHD code PLUTO in spherical coordinates with an axisymmetric multipolar expansion for the Hermean magnetic field, to analyze the effect of the interplanetary magnetic field (IMF) orientation and intensity, as well as the hydrodynamic parameters of the solar wind (velocity, density and temperature), on the net power dissipated on the Hermean day and night side. We apply the formalism derived by Zarka [2001, 2007] to infer the radio emission level from the net dissipated power. We perform a set of simulations with different hydrodynamic parameters of the solar wind, IMF orientations and intensities, that allow us to calculate the dissipated power distribution and infer the existence of radio emission hot spots on the planet day side, and to calculate the integrated radio emission of the Hermean magnetosphere. Results: The obtained radio emission distribution of dissipated power is determined by the IMF orientation (associated with the reconnection regions in the magnetosphere), although the radio emission strength is dependent on the IMF intensity and solar wind hydro parameters. The calculated total radio emission level is in agreement with the one estimated in [Zarka, 2001], between $5 \times 10^{5}$ and $2 \times 10^{6}$ W.
Many-terminal Majorana island: from Topological to Multi-Channel Kondo Model
Creators: name: Herviou, Loïc
name: Hur, Karyn Le
name: Mora, Christophe
Publisher: name: arXiv
Year: 2016
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: Superconductivity (cond-mat.supr-con)
subject: FOS: Physical sciences

description: We study Kondo screening obtained by coupling Majorana bound states, located on a topological superconducting island, to interacting electronic reservoirs. At the charge degeneracy points of the island, we formulate an exact mapping onto the spin-$1/2$ multi-channel Kondo effect. The coupling to Majorana fermions transforms the tunneling terms into effective fermionic bilinear contributions with a Luttinger parameter $K$ in the leads that is effectively doubled. For strong interaction, $K=1/2$, the intermediate fixed point of the standard multi-channel Kondo model is exactly recovered. It evolves with $K$ and connects to strong coupling in non-interacting case $K=1$, with maximum conductance between the leads and robustness against channel asymmetries similarly to the topological Kondo effect. For a number of leads above four, there exists a window of Luttinger parameters in which a quantum phase transition can occur between the strong coupling topological Kondo state and the partially conducting multi-channel Kondo state.
description: 15 pages, 3 figures, to be submitted to PRB - figure compilation solved
ELIXIR-UK Node Poster June 2020
Creators: name: Hunter, Catherine
name: Goble, Carole
name: Hall, Neil
name: ELIXIR-UK Management Committee
Publisher: name: F1000 Research Limited
Year: 2020

description: ELIXIR-UK participates in activities across ELIXIR including:

• Providing two of the three ELIXIR portals (FAIRsharing for community standards, and TeSS for life science training courses and materials - both are ELIXIR-UK Node Services)
• Co-leading training and interoperability platforms
• Providing one of the four ELIXIR Core Data Resources (CATH) that is not EMBL-EBI based

We are a distributed node involving collaboration between 18 different UK research institutions.
Microscopic and continuum descriptions of Janus motor fluid flow fields
Creators: name: Reigh, Shang Yik
name: Huang, Mu-Jie
name: Schofield, Jeremy
name: Kapral, Raymond
Publisher: name: arXiv
Year: 2016
Subjects: subject: Soft Condensed Matter (cond-mat.soft)
subject: FOS: Physical sciences

description: Active media, whose constituents are able to move autonomously, display novel features that differ from those of equilibrium systems. In addition to naturally-occurring active systems such as populations of swimming bacteria, active systems of synthetic self-propelled nanomotors have been developed. These synthetic systems are interesting because of their potential applications in a variety of fields. Janus particles, synthetic motors of spherical geometry with one hemisphere that catalyzes the conversion of fuel to product and one noncatalytic hemisphere, can propel themselves in solution by self-diffusiophoresis. In this mechanism the concentration gradient generated by the asymmetric catalytic activity leads to a force on the motor that induces fluid flows in the surrounding medium. These fluid flows are studied in detail through microscopic simulations of Janus motor motion and continuum theory. It is shown that continuum theory is able to capture many but not all features of the dynamics of the Janus motor and the velocity fields of the fluid.
METdb: A GENOMIC REFERENCE DATABASE FOR MARINE SPECIES
Creators: name: Guita Niang
name: Hoebeke, Mark
name: Meng, Arnaud
name: Liu, Xi
name: Scheremetjew, Maxim
name: Finn, Rob
name: Pelletier, Eric
name: Corre, Erwan
Publisher: name: F1000 Research Limited
Year: 2020

description: Marine protists are a phylogenetically broad group of eukaryotic organisms that are capable of existence as single cells. They are microscopic but display a myriad of morphologies, behaviors and nutritional modes. Their rapid growth rates enable them to contribute to important ecosystemic functions. They have roles in primary production which make them essential for the biogeochemical cycles of the ocean, including the transport of carbon to the deep ocean, also in the composition of the atmosphere. Despite there fundamental role, compared to marine prokaryotes, very little genomic data from marine protists are available so far.
In the context of the ELIXIR European project, we aim to consolidate and extend the reference marine eukaryote transcriptome resource by developing (1) reference transcriptome assemblies (2) portable and reproducible workflows for transcriptomic assembly and annotation, (2) a transcriptomic reference database of micro-eucaryotic marine species named METdb. The resource includes 1,574 transcriptome assemblies (reference and alternatives) and associated data (metrics and annotation) of 481 distinct marine micro-eukaryotic taxa spanning a large diversity of marine protists.
Existence, Stability and Dynamics of Harmonically Trapped One-Dimensional Multi-Component Solitary Waves: The Near-Linear Limit
Creators: name: Xu, Haitao
name: Kevrekidis, Panayotis G.
name: Kapitula, Todd
Publisher: name: arXiv
Year: 2016
Subjects: subject: Pattern Formation and Solitons (nlin.PS)
subject: Quantum Gases (cond-mat.quant-gas)
subject: FOS: Physical sciences

description: In the present work, we consider a variety of two-component, one-dimensional states in nonlinear Schrodinger equations in the presence of a parabolic trap, inspired by the atomic physics context of Bose-Einstein condensates. The use of Lyapunov-Schmidt reduction methods allows us to identify persistence criteria for the different families of solutions which we classify as (m,n), in accordance with the number of nodes in each component. Upon developing the existence theory, we turn to a stability analysis of the different configurations, using the Krein signature and the Hamiltonian-Krein index as topological tools identifying the number of potentially unstable eigendirections for each branch. A systematic expansion of suitably reduced eigenvalue problems when perturbing off of the linear limit permits us to obtain explicit expressions for the eigenvalues of each of the states considered. Finally, when the states are found to be unstable, typically by virtue of Hamiltonian Hopf bifurcations, their dynamics is studied in order to identify the nature of the respective instability. The dynamics is generally found to lead to a vibrational evolution over long time scales.
A new method for measuring the neutron lifetime using an in situ neutron detector
Creators: name: Morris, C. L.
name: Adamek, E. R.
name: Broussard, L. J.
name: Callahan, N. B.
name: Clayton, S. M.
name: Cude-Woods, C.
name: Currie, S. A.
name: Ding, X.
name: Fox, W.
name: Hickerson, K. P.
name: Holley, A. T.
name: Komives, A.
name: Liu, C. -Y.
name: Makela, M.
name: Pattie, R. W.
name: Ramsey, J.
name: Salvat, D. J.
name: Saunders, A.
name: Seestrom, S. J.
name: Sharapov, E. I.
name: Sjue, S. K.
name: Tang, Z.
name: Vanderwerp, J.
name: Vogelaar, B.
name: Walstrom, P. L.
name: Wang, Z.
name: Wei, Wanchun
name: Wexler, J. W.
name: Womack, T. L.
name: Young, A. R.
name: Zeck, B. A.
Publisher: name: arXiv
Year: 2016
Subjects: subject: Nuclear Experiment (nucl-ex)
subject: Instrumentation and Detectors (physics.ins-det)
subject: FOS: Physical sciences

description: The neutron lifetime is important in understanding the production of light nuclei in the first minutes after the big bang and it provides basic information on the charged weak current of the standard model of particle physics. Two different methods have been used to measure the neutron lifetime: disappearance measurements using bottled ultracold neutrons and decay rate measurements using neutron beams. The best measurements using these two techniques give results that differ by nearly 4 standard deviations. In this paper we describe a new method for measuring surviving neutrons in neutron lifetime measurements using bottled ultracold neutrons that provides better characterization of systematic uncertainties and enables higher precision than previous measurement techniques. We present results obtained using our method.
Antenna-enhanced Optoelectronic Probing of Carbon Nanotubes
Creators: name: Mauser, Nina
name: Hartmann, Nicolai
name: Hofmann, Matthias S.
name: Janik, Julia
name: Högele, Alexander
name: Hartschuh, Achim
Publisher: name: arXiv
Year: 2016
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: We report on the first antenna-enhanced optoelectronic microscopy studies on nanoscale devices. By coupling the emission and excitation to a scanning optical antenna, we are able to locally enhance the electroluminescence and photocurrent along a carbon nanotube device. We show that the emission source of the electroluminescence can be point-like with a spatial extension below 20 nm. Topographic and antenna-enhanced photocurrent measurements reveal that the emission takes place at the location of highest local electric field indicating that the mechanism behind the emission is the radiative decay of excitons created via impact excitation.
Effect of the interplanetary magnetic field orientation and intensity in the mass and energy deposition on the Hermean surface
Creators: name: Varela, J.
name: Pantellini, F.
name: Moncuquet, M.
Publisher: name: arXiv
Year: 2016
Subjects: subject: Earth and Planetary Astrophysics (astro-ph.EP)
subject: Space Physics (physics.space-ph)
subject: FOS: Physical sciences

description: The aim of the present study is to simulate the interaction between the solar wind and the Hermean magnetosphere. We use the MHD code PLUTO in spherical coordinates with an axisymmetric multipolar expansion of the Hermean magnetic field, to perform a set of simulations with different interplanetary magnetic field orientations and intensities. We fix the hydrodynamic parameters of the solar wind to study the distortions driven by the interplanetary magnetic field in the topology of the Hermean magnetosphere, leading to variations of the mass and energy deposition distributions, the integrated mass deposition, the oval aperture, the area covered by open magnetic field lines and the regions of efficient particle sputtering on the planet surface. The simulations show a correlation between the reconnection regions and the local maxima of plasma inflow and energy deposition on the planet surface.
BioInfra.Prot: Bioinformatics services for proteomics and biomedical research including tools based on text mining
Creators: name: Turewicz, Michael
name: Stepath, Markus
name: Schork, Karin
name: Frericks-Zipper, Anika
name: Marcus, Katrin
name: Eisenacher, Martin
Publisher: name: F1000 Research Limited
Year: 2020

description: The service center BioInfra.Prot, which is part of the German Network for Bioinformatics Infrastructure (de.NBI) and ELIXIR Germany, provides a comprehensive portfolio of bioinformatics services for proteomics. This includes data standardization, data conversion and data publication services as well as computational and statistical consultancy and data analysis (esp. protein inference and expression analysis), software tools (e.g. PIA and PAA) and training courses. Altogether, we offer a comprehensive proteomics service portfolio.
Recently, we extended our service list by a tool based on biomedical text mining: The novel biomarker database BIONDA, which provides structured information on biomarker-disease relationships of all biomarker candidates published in PubMed abstracts. Since there is a dramatically increasing number of biomarker-related scientific articles and structured information on biomarkers is often restricted, limited to particular types of markers or diseases, outdated and/or user-unfriendly in existing online databases, it becomes unfeasible for researchers to keep track of all recent biomarker publications. In this context, the objective of BIONDA is to acquire the current knowledge on biomarker-disease relationships automatically by an intelligent system, which provides it freely and rapidly.
As sources for BIONDA’s database entries, we use besides PubMed article abstracts further renowned databases such as UniProt and Human Disease Ontology. This information is acquired automatically and updated regularly using text mining methods. BIONDA is available freely via a user-friendly web interface and it is not limited to any kind of diseases. As a specific characteristic, BIONDA’s database entries are rated by a scoring approach estimating biomarker reliability. Thus, BIONDA is a valuable knowledge resource for biomedical research.
Investigating mass segregation process in globular clusters with Blue Straggler Stars: the impact of dark remnants
Creators: name: Alessandrini, Emiliano
name: Lanzoni, Barbara
name: Ferraro, Francesco Rosario
name: Miocchi, Paolo
name: Vesperini, Enrico
Publisher: name: arXiv
Year: 2016
Subjects: subject: Astrophysics of Galaxies (astro-ph.GA)
subject: Solar and Stellar Astrophysics (astro-ph.SR)
subject: FOS: Physical sciences

description: We present the results of a set of N-body simulations aimed at exploring how the process of mass segregation (as traced by the spatial distribution of blue straggler stars, BSSs) is affected by the presence of a population of heavy dark remnants (as neutron stars and black holes). To this end, clusters characterized by different initial concentrations and different fractions of dark remnants have been modeled. We find that an increasing fraction of stellar-mass black holes significantly delays the mass segregation of BSSs and the visible stellar component. In order to trace the evolution of BSS segregation, we introduce a new parameter ($A^+$) that can be easily measured when the cumulative radial distribution of these stars and a reference population are available. Our simulations show that $A^+$ might also be used as an approximate indicator of the time remaining to the core collapse of the visible component.
description: ApJ accepted
Structural Bounds on the Dyadic Effect
Creators: name: Cinelli, Matteo
name: Ferraro, Giovanna
name: Iovanella, Antonio
Publisher: name: arXiv
Year: 2016
Subjects: subject: Combinatorics (math.CO)
subject: Social and Information Networks (cs.SI)
subject: Physics and Society (physics.soc-ph)
subject: FOS: Mathematics
subject: FOS: Computer and information sciences
subject: FOS: Physical sciences

description: In this paper we consider the dyadic effect introduced in complex networks when nodes are distinguished by a binary characteristic. Under these circumstances two independent parameters, namely dyadicity and heterophilicity, are able to measure how much the assigned characteristic affects the network topology. All possible configurations can be represented in a phase diagram lying in a two-dimensional space that represents the feasible region of the dyadic effect, which is bound by two upper bounds on dyadicity and heterophilicity. Using some network's structural arguments, we are able to improve such upper bounds and introduce two new lower bounds, providing a reduction of the feasible region of the dyadic effect as well as constraining dyadicity and heterophilicity within a specific range. Some computational experiences show the bounds' effectiveness and their usefulness with regards to different classes of networks.
The many faces of LINER-like galaxies: a WISE view
Creators: name: Herpich, F. R.
name: Mateus, A.
name: Stasińska, G.
name: Fernandes, R. Cid
name: Asari, N. Vale
Publisher: name: arXiv
Year: 2016
Subjects: subject: Astrophysics of Galaxies (astro-ph.GA)
subject: FOS: Physical sciences
subject: J.2

description: We use the SDSS and WISE surveys to investigate the real nature of galaxies defined as LINERs in the BPT diagram. After establishing a mid-infrared colour W2-W3 = 2.5 as the optimal separator between galaxies with and without star formation, we investigate the loci of different galaxy classes in the W_{Ha} versus W2-W3 space. We find that: (1) A large fraction of LINER-like galaxies are emission-line retired galaxies, i.e galaxies which have stopped forming stars and are powered by hot low-mass evolved stars (HOLMES). Their W2-W3 colours show no sign of star formation and their Ha equivalent widths, W_{Ha}, are consistent with ionization by their old stellar populations. (2) Another important fraction have W2-W3 indicative of star formation. This includes objects located in the supposedly `pure AGN' zone of the BPT diagram. (3) A smaller fraction of LINER-like galaxies have no trace of star formation from W2-W3 and a high W_{Ha}, pointing to the presence of an AGN. (4) Finally, a few LINERs tagged as retired by their W_{Ha} but with W2-W3 values indicative of star formation are late-type galaxies whose SDSS spectra cover only the old `retired' bulge. This reinforces the view that LINER-like galaxies are a mixed bag of objects involving different physical phenomena and observational effects thrusted into the same locus of the BPT diagram.
description: Accepted for publication in MNRAS; 9 pages, 6 figures
Women directors who guarantee company debts : resolving the conundrum of protection versus liability
Creators: name: Pascoe, Janine
Publisher: name: Monash University
Year: 2021

description: This thesis was scanned from the print manuscript for digital preservation and is copyright the author.
 Researchers can access this thesis by asking their local university, institution or public library to
 make a request on their behalf. Monash staff and postgraduate students can use the link in the Reference field.
Bridging the gap between science and policy: Empowering the next generation
Creators: name: Bankston, Adriana
Publisher: name: F1000 Research Limited
Year: 2020

description: This talk was given during the webinar on "Advocating for Science to Policy Makers" organized by The New York Academy of Sciences on June 11, 2020. The goal was to describe a career path from academia to policy, showcase how this transition was facilitated by engagement with non-profit organizations advocating for early career scientists, provide examples of successful advocacy, and give advice for achieving success in science policy careers.
Nanoscale Structure and Elasticity of Pillared DNA Nanotubes
Creators: name: Joshi, Himanshu
name: Kaushik, Atul
name: Seeman, Nadrian C.
name: Maiti, Prabal K.
Publisher: name: arXiv
Year: 2016
Subjects: subject: Soft Condensed Matter (cond-mat.soft)
subject: Biological Physics (physics.bio-ph)
subject: Chemical Physics (physics.chem-ph)
subject: FOS: Physical sciences

description: We present an atomistic model of pillared DNA nanotubes (DNTs) and their elastic properties which will facilitate further studies of these nanotubes in several important nanotechnological and biological applications. In particular, we introduce a computational design to create an atomistic model of a 6-helix DNT (6HB) along with its two variants, 6HB flanked symmetrically by two double helical DNA pillars (6HB+2) and 6HB flanked symmetrically by three double helical DNA pillars (6HB+3). Analysis of 200 ns all-atom simulation trajectories in the presence of explicit water and ions shows that these structures are stable and well behaved in all three geometries. Hydrogen bonding is well maintained for all variants of 6HB DNTs. We calculate the persistence length of these nanotubes from their equilibrium bend angle distributions. The values of persistence length are ~10 μm, which is 2 orders of magnitude larger than that of dsDNA. We also find a gradual increase of persistence length with an increasing number of pillars, in quantitative agreement with previous experimental findings. To have a quantitative understanding of the stretch modulus of these tubes we carried out nonequilibrium Steered Molecular Dynamics (SMD). The linear part of the force extension plot gives stretch modulus in the range of 6500 pN for 6HB without pillars which increases to 11,000 pN for tubes with three pillars. The values of the stretch modulus calculated from contour length distributions obtained from equilibrium MD simulations are similar to those obtained from nonequilibrium SMD simulations. The addition of pillars makes these DNTs very rigid.
description: Published in ACS Nano
Low rank factorization of the Coulomb integrals for periodic coupled cluster theory
Creators: name: Hummel, Felix
name: Tsatsoulis, Theodoros
name: Grüneis, Andreas
Publisher: name: arXiv
Year: 2016
Subjects: subject: Chemical Physics (physics.chem-ph)
subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: We study the decomposition of the Coulomb integrals of periodic systems into a tensor contraction of six matrices of which only two are distinct. We find that the Coulomb integrals can be well approximated in this form already with small matrices compared to the number of real space grid points. The cost of computing the matrices scales as O(N^4) using a regularized form of the alternating least squares algorithm. The studied factorization of the Coulomb integrals can be exploited to reduce the scaling of the computational cost of expensive tensor contractions appearing in the amplitude equations of coupled cluster methods with respect to system size. We apply the developed methodologies to calculate the adsorption energy of a single water molecule on a hexagonal boron nitride monolayer in a plane wave basis set and periodic boundary conditions.
title: Social Formation of Japanese Subjecthood Between 1868 and 1905
Creators: name: Tsurumoto, Kaori
Publisher: name: Goldsmiths, University of London
Year: 2001

description: For over two centuries prior to 1868, the Tokugawa government consistently refused to have official relations with the outside world, and took a strict policy of isolationism. However, with the ever-increasing encroachment of western naval powers onto its shores, 'Japanese' authorities began to recognise the need to take a different attitude toward its relations with the outside world, especially with the 'West', and began the process of 'modernising' the 'nation'. This thesis will critically investigate what this process of 'modernisation' entailed, by focusing upon the social formation of Japanese subjecthood between 1868 and 1905. Undertaking a semiotic analysis of advertisements and a genealogical analysis of ethical school textbooks, this thesis argues that the subjectification of Japanese national identity was specifically different from the western one. Through a semiotic analysis of advertisements, it suggests that the operative symbolic system which formed the Japanese subject was one premised upon hybridity rather than essentialism. Through a genealogical analysis of ethical school textbooks, it argues that the subject was constituted through governing the bodily performance of the subject, and one which naturalised the uniqueness of the Japanese race. These analyses will indicate that the forms of subjectification which may be identified in the process of Japanese modernisation are cognisant of some of the radical models of the subject proposed by some post-1968 theories. These proposals were intended to beget or designate a model of the subject which can resist and overcome the legacy of violence inherent in western thought, particularly of the kind that legitimated its history of imperialism. However, I argue that since these alternatives bear semblance to those located in the historical formations that resulted in Japanese imperialism, a critique of thought alone cannot be the basis of social critique, but that thought must be continually apprehended as part of a system of practice in academic activities.
X-ray absorption and emission spectroscopy study of Mn and Co valence and spin states in TbMn$_{\rm 1-x}$Co$_{\rm x}$O$_3$
Creators: name: Cuartero, V.
name: Lafuerza, S.
name: Rovezzi, M.
name: Garcia, J.
name: Blasco, J.
name: Subias, G.
name: Jiménez, E.
Publisher: name: arXiv
Year: 2016
Subjects: subject: Materials Science (cond-mat.mtrl-sci)
subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: FOS: Physical sciences

description: The valence and spin state evolution of Mn and Co on TbMn$_{\rm 1-x}$Co$_{\rm x}$O$_3$ series is precisely determined by means of soft and hard x-ray absorption spectroscopy (XAS) and K$β$ x-ray emission spectroscopy (XES). Our results show the change from Mn$^{3+}$ to Mn$^{4+}$ both high-spin (HS) together with the evolution from Co$^{2+}$ HS to Co$^{3+}$ low-spin (LS) with increasing $\rm x$. In addition, high energy resolution XAS spectra on the K pre-edge region are interpreted in terms of the strong charge transfer and hybridization effects along the series. These results correlate well with the spin values of Mn and Co atoms obtained from the K$β$ XES data. From this study, we determine that Co enters into the transition metal sublattice of TbMnO$_3$ as a divalent ion in HS state, destabilizing the Mn long range magnetic order since very low doping compositions (${\rm x} \le 0.1$). Samples in the intermediate composition range ($0.4 \le {\rm x} \le 0.6$) adopt the crystal structure of a double perovskite with long range ferromagnetic ordering which is due to Mn$^{4+}$-O-Co$^{2+}$ superexchange interactions with both cations in HS configuration. Ferromagnetism vanishes for ${\rm x} \ge 0.7$ due to the structural disorder that collapses the double perovskite structure. The spectroscopic techniques reveal the occurrence of Mn$^{4+}$ HS and a fluctuating valence state Co$^{2+}$ HS/Co$^{3+}$ LS in this composition range. Disorder and competitive interactions lead to a magnetic glassy behaviour in these samples.
A rigorous sharp interface limit of a diffuse interface model related to tumor growth
Creators: name: Rocca, E.
name: Scala, R.
Publisher: name: arXiv
Year: 2016
Subjects: subject: Analysis of PDEs (math.AP)
subject: FOS: Mathematics

description: In this paper we study the rigorous sharp interface limit of a diffuse interface model related to the dynamics of tumor growth, when a parameter $ε$, representing the interface thickness between the tumorous and non tumorous cells, tends to zero. More in particular, we analyze here a gradient-flow type model arising from a modification of the recently introduced model for tumor growth dynamics in [A. Hawkins-Daruud, K. G. van der Zee, J. T. Oden, Numerical simulation of a thermodynamically consistent four-species tumor growth model, Int. J. Numer. Math. Biomed. Engng. 28 (2011), 3--24.] (cf. also [D. Hilhorst, J. Kampmann, T. N. Nguyen, K. G. van der Zee, Formal asymptotic limit of a diffuse-interface tumor-growth model, Math. Models Methods Appl. Sci. 25 (2015), 1011--1043.]). Exploiting the techniques related to both gradient-flows and gamma convergence, we recover a condition on the interface $Γ$ relating the chemical and double-well potentials, the mean curvature, and the normal velocity.