cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Studying Earth's magnetosphere with energetic particles
Creators: name: Chepuri, Sanjay
Publisher: name: University of Iowa
Year: 2024
Subjects: Heliophysics
Magnetosphere
Space Physics

description: Energetic particles are a useful tool in studying the magnetosphere to help track processes such as reconnection, wave activity, and other phenomena in the magnetosphere in addition to the effects that these particles can have directly. For this work, we used satellite observations of energetic particles, primarily with the MMS spacecraft, to study energetic particles and how they can illuminate phenomena in various regions of the magnetosphere.
description: First, we used observations in the low-latitude boundary layer to conclude that energetic electron enhancements in this region are reasonably common but not omnipresent and that they are likely to be correlated with reconnection. Then, we turned our attention to the tail and used multipoint observations to compare the energies of particle injections in the tail to the inner magnetosphere. We found that there was not a clear connection between the most intense injections at the two locations, and injections in the inner magnetosphere did not see a flux increase to energies as high as in the tail, suggesting a non-linear mechanism limiting access of the most energetic particles to the inner magnetosphere. Finally, we focused in on particle acceleration at dipolarization fronts. We found that describing both electron and ion acceleration with simple adiabatic acceleration equations was not generally accurate without obvious candidates for a specific characteristic that is causing inaccuracies. This could be because non-adiabatic processes are occurring or, perhaps more likely, identifying the source population is problematic.
Additional file 1 of Impact of community-based employment on Aboriginal and Torres Strait Islander wellbeing, aspirations, and resilience
Creators: name: Doery, Elizabeth
name: Satyen, Lata
name: Paradies, Yin
name: Gee, Graham
name: Toumbourou, John W.
Publisher: name: figshare
Year: 2024
Subjects: Biological Sciences not elsewhere classified
Science Policy
Mental Health

description: Supplementary Material 1
title: ADCO, Cartulaire de l'abbaye de Cîteaux dit Cartulare Antiquum t.2 (2e moitié XIIIe siècle), Cart. 167 (11 H 67), f. 0039v
Creators: name: de la Côte d'Or, Archives départementales
name: Archives Départementales De La Côte-D'Or
name: Petot, Frédérique
name: Projet CBMA
name: CG21/F.PETOT/2010
name: Petot, Frédéric
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2020
Subjects: subject: LaMOP
subject: Laboratoire de Médiévistique Occidentale de Paris
subject: Corpus Burgundiae Medii Aevi
subject: Chartes de la Bourgogne du Moyen Âge
subject: cartulaire

description: Cartulaire de l'abbaye de Cîteaux dit Cartulare Antiquum t.2 (2e moitié XIIIe siècle), Archives départementales de la Côte-d'Or, Cart. 167 (11 H 67), f. 0039v, Numérisation en mode image.
description: Relation: http://www.cbma-project.eu/
description: Bibliographic citation: Cartulaire de l'abbaye de Cîteaux dit Cartulare Antiquum t.2 (2e moitié XIIIe siècle), Archives départementales de la Côte-d'Or, Cart. 167 (11 H 67), f. 0039v, in Projet CBMA - Corpus Burgundiae Medii Aevi [Ressource en ligne], https:// manuscrits.cbma-project.eu/
description: Provenance: abbaye de Cîteaux
description: Provenance: http://www.wikidata.org/entity/Q843261
description: Provenance: https://www.geonames.org/3024876
description: Provenance: http://www.idref.fr/030974844/id
description: Provenance: https://catalogue.bnf.fr/ark:/12148/cb12228351v
Eragrostis nigra Petch, Ann. R.
Creators: name: Karunarathna, Samantha C.
name: Priyashantha, K Hasith
name: Tibpromma, Saowaluck
name: Galappaththi, Mahesh C. A.
name: Premarathne, Bhagya M.
name: Wijayawardene, Nalin N.
name: Wimalasena, Madhara K.
name: Jayalal, Udeni
name: Wickramanayake, Kawmini D.
name: Dangalla, Hasanka
name: Jayathunga, Hashini
name: Brahmanage, Rashika S.
name: Weerakoon, Gothamie
name: Ariyawansa, Kahandawa G. S. U.
name: Yapa, Neelamanie
name: Nanayakkara, Chandrika M.
name: Ediriweera, Surani
name: Fan, Xin-Lei
name: Kirk, Paul M.
name: Zhang, Gui-Qing
name: Ediriweera, Aseni
name: Bhat, Jayarama
name: Dawoud, Turki M.
name: Kumara, Wasantha
name: Deng, Chun Ying
Publisher: name: Zenodo
Year: 2023
Subjects: Biodiversity
Taxonomy
Plantae
Tracheophyta
Liliopsida
Poales
Poaceae
Eragrostis
Eragrostis nigra

description: C.  nigra Petch, Ann. R. bot. Gdns Peradeniya 6 (3): 196 (1917) /IF: 174982
 Current name: Tricholomopsis nigra (Petch) Pegler, Kew Bull., Addit. Ser. 12: 88 (1986) (New classification:  Agaricales genera incertae sedis, Agaricomycetes )
 Typification Details: Holotype PDA 4242, In clump of Bambusae, Sri Lanka
References: Petch (1917a & b)
description: Published as part of Karunarathna, Samantha C., Priyashantha, K Hasith, Tibpromma, Saowaluck, Galappaththi, Mahesh C. A., Premarathne, Bhagya M., Wijayawardene, Nalin N., Wimalasena, Madhara K., Jayalal, Udeni, Wickramanayake, Kawmini D., Dangalla, Hasanka, Jayathunga, Hashini, Brahmanage, Rashika S., Weerakoon, Gothamie, Ariyawansa, Kahandawa G. S. U., Yapa, Neelamanie, Nanayakkara, Chandrika M., Ediriweera, Surani, Fan, Xin-Lei, Kirk, Paul M., Zhang, Gui-Qing, Ediriweera, Aseni, Bhat, Jayarama, Dawoud, Turki M., Kumara, Wasantha & Deng, Chun Ying, 2023, Checklist, typification details, and nomenclature status of Basidiomycota, originally described from Sri Lanka, pp. 1-86 in Phytotaxa 621 (1) on page 40, DOI: 10.11646/phytotaxa.621.1.1, http://zenodo.org/record/10065102
A trapped ultracold atom force sensor with a $μ$m-scale spatial resolution
Creators: name: Alauze, Xavier
name: Bonnin, Alexis
name: Solaro, Cyrille
name: Santos, Franck Pereira Dos
Publisher: name: arXiv
Year: 2018
Subjects: subject: Atomic Physics (physics.atom-ph)
subject: FOS: Physical sciences

description: We report on the use of an ultracold ensemble of $^{87}$Rb atoms trapped in a vertical lattice as a source for a quantum force sensor based on a Ramsey-Raman type interferometer. We reach spatial resolution in the low micrometer range in the vertical direction thanks to evaporative cooling down to ultracold temperatures in a crossed optical dipole trap. In this configuration, the coherence time of the atomic ensemble is degraded by inhomogeneous dephasing arising from atomic interactions. By weakening the confinement in the transverse direction only, we dilute the cloud and drastically reduce the strength of these interactions, without affecting the vertical resolution. This allows to maintain an excellent relative sensitivity on the Bloch frequency, which is related to the local gravitational force, of $5\times10^{-6}$ at 1\,s which integrates down to $8\times10^{-8}$ after one hour averaging time.
Atmospheric mass loss due to giant impacts: the importance of the thermal component for hydrogen-helium envelopes
Creators: name: Biersteker, John B.
name: Schlichting, Hilke E.
Publisher: name: arXiv
Year: 2018
Subjects: subject: Earth and Planetary Astrophysics (astro-ph.EP)
subject: FOS: Physical sciences

description: Systems of close-in super-Earths display striking diversity in planetary bulk density and composition. Giant impacts are expected to play a role in the formation of many of these worlds. Previous works, focused on the mechanical shock caused by a giant impact, have shown that these impacts can eject large fractions of the planetary envelope, offering a partial explanation for the observed spread in exoplanet compositions. Here, we examine the thermal consequences of giant impacts, and show that the atmospheric loss caused by these effects can significantly exceed that caused by mechanical shocks for hydrogen-helium (H/He) envelopes. When a giant impact occurs, part of the impact energy is converted into thermal energy, heating the rocky core and the envelope. We find that the ensuing thermal expansion of the envelope can lead to a period of sustained, rapid mass loss through a Parker wind, resulting in the partial or complete erosion of the H/He envelope. The fraction of the envelope lost depends on the planet's orbital distance from its host star and its initial thermal state, and hence age. Planets closer to their host stars are more susceptible to thermal atmospheric loss triggered by impacts than ones on wider orbits. Similarly, younger planets, with rocky cores which are still hot and molten from formation, suffer greater atmospheric loss. This is especially interesting because giant impacts are expected to occur $10{-}100~\mathrm{Myr}$ after formation. For planets where the thermal energy of the core is much greater than the envelope energy, the impactor mass required for significant atmospheric removal is $M_\mathrm{imp} / M_p \sim μ/ μ_c \sim 0.1$, approximately the ratio of the heat capacities of the envelope and core. When the envelope energy dominates the total energy budget, complete loss can occur when the impactor mass is comparable to the envelope mass.
description: 10 pages, 9 figures
Correlated gluonic hot spots meet symmetric cumulants data at LHC energies
Creators: name: Albacete, Javier L.
name: Niemi, Harri
name: Petersen, Hannah
name: Soto-Ontoso, Alba
Publisher: name: arXiv
Year: 2018
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: High Energy Physics - Experiment (hep-ex)
subject: Nuclear Theory (nucl-th)
subject: FOS: Physical sciences

description: We present a systematic study on the influence of spatial correlations between the proton constituents, in our case gluonic hot spots, their size and their number on the symmetric cumulant SC(2,3), at the eccentricity level, within a Monte Carlo Glauber framework [1]. When modeling the proton as composed by 3 gluonic hot spots, the most common assumption in the literature, we find that the inclusion of spatial correlations is indispensable to reproduce the negative sign of SC(2,3) in the highest centrality bins as dictated by data. Further, the subtle interplay between the different scales of the problem is discussed. To conclude, the possibility of feeding a 2+1D viscous hydrodynamic simulation with our entropy profiles is exposed.
description: 4 pages, 3 figures, talk by A.Soto-Ontoso at the Quark Matter 2018 conference
Magnetic Properties of Epitaxial and Polycrystalline Fe/Si Multilayers
Creators: name: Chaiken, A.
name: Michel, R. P.
name: Wang, C. -T.
Publisher: name: arXiv
Year: 1995
Subjects: subject: Condensed Matter (cond-mat)
subject: FOS: Physical sciences

description: Fe/Si multilayers with antiferromagnetic interlayer coupling have been grown via ion-beam sputtering on both glass and single-crystal substrates. High-angle x-ray diffraction measurements show that both sets of films have narrow Fe peaks, implying a large crystallite size and crystalline iron silicide spacer layers. Low-angle x-ray diffraction measurements show that films grown on glass have rougher interfaces than those grown on single-crystal substrates. The multilayers grown on glass have a larger remanent magnetization than the multilayers grown on single-crystal substrates. The observation of magnetocrystalline anisotropy in hysteresis loops and $(hkl)$ peaks in x-ray diffraction demonstrates that the films grown on MgO and Ge are epitaxial. The smaller remanent magnetization in Fe/Si multilayers with better layering suggests that the remanence is not an intrinsic property.
description: 9 pages, RevTex, 4 figures available by fax. Send email to alison@wsrcc.com for more info. Submitted to '95 MMM proceedings
Non-point source-driven carbon and nutrient loading to Ganga River (India)
Creators: name: Singh, Rachna
name: Jitendra Pandey
Publisher: name: Taylor & Francis
Year: 2018
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Biotechnology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Ecology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Inorganic Chemistry
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: This study was designed to test whether the atmospheric deposition (AD) significantly influences gross primary productivity (GPP) and dissolved organic carbon (DOC) build-up in the Ganga River. We collected data for three consecutive years (2012–2014) along with 37 km river stretch with respect to AD-input of carbon, nutrients, and surface runoff chemistry to relate changes in the river water. We found strong linkages among carbon and nutrients in AD, surface runoff and in the river. The concentration of DOC in the river was highest in the rainy season while those of dissolved inorganic nitrogen and dissolved reactive phosphorus were highest in winter. Spatio-temporal changes in DOC indicated dependence on point- and non-point sources and within-system DOC build-up. The GPP in the river increased consistently over time and significantly correlated with AD-N (R2 = 0.96, p R2 = 0.97, p 
Tracking the History of Alberta Oil Sands Contaminants Using Lake Sediment Cores
Creators: name: Salat, Alexandre
Publisher: name: Université d'Ottawa / University of Ottawa
Year: 2019
Subjects: Polycyclic aromatic compounds
Petroleum biomarkers
Paleolimnology

description: Petroleum hydrocarbons are emitted into the environment via natural and anthropogenic activities. Once emitted, these hydrocarbons can be transported globally, persisting and accumulating in aquatic ecosystems. In the Alberta oil sands region (AOSR), mining activities have significantly altered and polluted the surrounding aquatic and terrestrial environments with heavy metals and various petroleum hydrocarbons including polycyclic aromatic hydrocarbons (PACs). Though PACs have been tracked through time using dated lake sediment cores, separating natural and anthropogenic PACs can be difficult. In the Peace Athabasca Delta (PAD) this task is especially difficult as this region has been receiving annual inputs of naturally eroded bitumen throughout history. Petroleum biomarkers are unique petrogenic compounds (i.e. derived from petroleum) which may provide a secondary proxy to track mining impacts. This thesis investigated the impacts of mining activities on the AOSR and the PAD using two different proxies, PAC and petroleum biomarkers. These two regions were compared to reference lakes to the south and northwest of the Athabasca oil sands formation, in order to provide a natural signal, with minimal oil sands mining contamination. Historically deposited PACs and petroleum biomarkers were analysed in radiometrically dated lake sediment cores from the AOSR and the PAD, Alberta. Sediment profiles in the AOSR (Saline Lake) showed increases in PAC fluxes for both alkylated and parent compounds coeval with mining activities. Alkylated PAC fluxes in reference lakes (Mariana Lake and BM11) increased at the height of oil sands development (1990s). PAD lakes showed no statistical increase in PAC flux through time due to high levels of naturally eroded bitumen entering the system. Parent PAC diagnostic ratios, however, showed clear shifts from pyrogenic (primarily wood burning) in pre-development sediments to petrogenically derived PACs in modern sediments, in both AOSR and PAD lakes, coeval with oil sands development. Petroleum biomarker diagnostic ratios in Saline Lake and PAD lakes remained stable through time, indicating a clear current and historical petroleum signal originating from the AOSR. Reference lakes (Mariana Lake and BM11) showed the greatest change in petroleum biomarkers. Historically, these lakes had signatures uncommon of petroleum sources, however, in recent years petroleum inputs from mining development were revealed by these petroleum biomarkers. This study compared the historical trends of several petroleum hydrocarbons in lake sediment to the historical emissions of these petroleum hydrocarbons from oil sands mining operations. Notably, we show the potential for petroleum biomarkers to trace petroleum hydrocarbon contamination in the environment.
Kernel Estimation in High-Energy Physics
Creators: name: Cranmer, Kyle S.
Publisher: name: arXiv
Year: 2000
Subjects: subject: High Energy Physics - Experiment (hep-ex)
subject: FOS: Physical sciences

description: Kernel Estimation provides an unbinned and non-parametric estimate of the probability density function from which a set of data is drawn. In the first section, after a brief discussion on parametric and non-parametric methods, the theory of Kernel Estimation is developed for univariate and multivariate settings. The second section discusses some of the applications of Kernel Estimation to high-energy physics. The third section provides an overview of the available univariate and multivariate packages. This paper concludes with a discussion of the inherent advantages of kernel estimation techniques and systematic errors associated with the estimation of parent distributions.
description: 17 pages, 2 ps figures. To be published in Computer Physics Communications. Uses elsart.sty and elsart.cls files
Panaeolus rubricaulis Petch, Ann. R.
Creators: name: Karunarathna, Samantha C.
name: Priyashantha, K Hasith
name: Tibpromma, Saowaluck
name: Galappaththi, Mahesh C. A.
name: Premarathne, Bhagya M.
name: Wijayawardene, Nalin N.
name: Wimalasena, Madhara K.
name: Jayalal, Udeni
name: Wickramanayake, Kawmini D.
name: Dangalla, Hasanka
name: Jayathunga, Hashini
name: Brahmanage, Rashika S.
name: Weerakoon, Gothamie
name: Ariyawansa, Kahandawa G. S. U.
name: Yapa, Neelamanie
name: Nanayakkara, Chandrika M.
name: Ediriweera, Surani
name: Fan, Xin-Lei
name: Kirk, Paul M.
name: Zhang, Gui-Qing
name: Ediriweera, Aseni
name: Bhat, Jayarama
name: Dawoud, Turki M.
name: Kumara, Wasantha
name: Deng, Chun Ying
Publisher: name: Zenodo
Year: 2023
Subjects: Biodiversity
Taxonomy
Fungi
Basidiomycota
Agaricomycetes
Agaricales
Bolbitiaceae
Panaeolus
Panaeolus rubricaulis

description: P. rubricaulis Petch, Ann. R. bot. Gdns Peradeniya 9: 314 (1925) /IF: 162150
Typification Details: On soil, Sri Lanka
Reference: Petch (1925c)
description: Published as part of Karunarathna, Samantha C., Priyashantha, K Hasith, Tibpromma, Saowaluck, Galappaththi, Mahesh C. A., Premarathne, Bhagya M., Wijayawardene, Nalin N., Wimalasena, Madhara K., Jayalal, Udeni, Wickramanayake, Kawmini D., Dangalla, Hasanka, Jayathunga, Hashini, Brahmanage, Rashika S., Weerakoon, Gothamie, Ariyawansa, Kahandawa G. S. U., Yapa, Neelamanie, Nanayakkara, Chandrika M., Ediriweera, Surani, Fan, Xin-Lei, Kirk, Paul M., Zhang, Gui-Qing, Ediriweera, Aseni, Bhat, Jayarama, Dawoud, Turki M., Kumara, Wasantha & Deng, Chun Ying, 2023, Checklist, typification details, and nomenclature status of Basidiomycota, originally described from Sri Lanka, pp. 1-86 in Phytotaxa 621 (1) on page 41, DOI: 10.11646/phytotaxa.621.1.1, http://zenodo.org/record/10065102
Constraints and Facilitators in Academic and Athletic Settings for Varsity Football Student-Athletes with a Sport-Related Concussion
Creators: name: Hamidi, Wahid
Publisher: name: Université d'Ottawa / University of Ottawa
Year: 2019
Subjects: Sport-Related Concussion
Varsity Football Student-Athletes
Social Ecological Model
Qualitative

description: Sports-related concussions are a growing public health concern affecting numerous varsity football student-athletes. This study used the social ecological model to identify intrapersonal, interpersonal, and environmental factors. The purpose of this study is to identify constraints and facilitators in academic and athletic settings for varsity football student-athletes with a sport-related concussion. Twelve current varsity football student-athletes from one institution who suffered a sport-related concussion took part in semi-structured interviews. Data were thematically analyzed. Results indicate that varsity football student-athletes with a sport-related concussion perceived numerous constraining and facilitating social ecological factors in the academic and athletic settings. Intrapersonal constraints revolved around loss of motivation, loss of social identification, stress, anxiety and depression, injury-specific issues (i.e. difficulty thinking clearly, remembering, drowsiness), internal pressure to return, while intrapersonal facilitators included prior experiences of enjoyment in academic and athletic activities, seeing improvements in the recovery process, and not giving up. Interpersonal constraints related to insufficient social support, lack of awareness and guidance on concussion knowledge, external pressure to return, and lack of academic support post-concussion, while interpersonal facilitators included passionate therapy staff, and sport psychologist. Environmental constraints pertained to return-to-play and return-to-learn protocols, while environmental facilitators included having access to concussion-based resources. Findings suggest that there remains a need to address constraining and facilitating factors in the academic and athletic settings for varsity football student-athletes with a sport-related concussion
Five-Dimensional Gauged Supergravity and Supersymmetry Breaking in $M$~Theory
Creators: name: Ellis, John
name: Lalak, Zygmunt
name: Pokorski, Witold
Publisher: name: arXiv
Year: 1998
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: We extend the formulation of gauged supergravity in five dimensions, as obtained by compactification of $M$~theory on a deformed Calabi-Yau manifold, to include non-universal matter hypermultiplets. Even in the presence of this gauging, only the graviton supermultiplets and matter hypermultiplets can couple to supersymmetry breaking sources on the walls, though these mix with vector supermultiplets in the bulk. Whatever the source of supersymmetry breaking on the hidden wall, that on the observable wall is in general a combination of dilaton- and moduli-dominated scenarios.
description: 20 pages, LaTex, corrected typos and notation, added references
Additional file 1 of Optimising diagnosis and management of kidney disease: an implementation trial of a clinical decision support system future health today
Creators: name: Wallace, Hannah
name: Wang, Qiumian
name: Botha, Tanita
name: Hunter, Barbara
name: Lumsden, Natalie
name: Nelson, Craig
Publisher: name: figshare
Year: 2024
Subjects: subject: Medicine
subject: Biotechnology
subject: Sociology
subject: FOS: Sociology
subject: Biological Sciences not elsewhere classified
subject: Information Systems not elsewhere classified
subject: Cancer

description: Supplementary Material 1: Education outline, clinician surveys and interview questions
Equivalence of the grand canonical partition functions of particles with different statistics
Creators: name: Chaturvedi, S.
name: MacKenzie, R.
name: Panigrahi, P. K.
name: Srinivasan, V.
Publisher: name: arXiv
Year: 1997
Subjects: subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: It is shown that the grand partition function of an ideal Bose system with single particle spectrum $ε_i = (2n+k+3/2)\hbarω$ is identical to that of a system of particles with single particle energy $ε_i =(n+1/2)\hbarω$ and obeying a particular kind of statistics based on the permutation group.
description: 4 pages
Quantum corrections to the Classical Statistical Approximation for the expanding quantum field
Creators: name: Leonidov, A. V.
name: Radovskaya, A. A.
Publisher: name: arXiv
Year: 2018
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: We found the deviation of the equation of state from ultrarelativistic one due to quantum corrections for a nonequilibrium longitudinally expanding scalar field. Relaxation of highly excited quantum field is usually described in terms of Classical Statistical Approximation (CSA). However, the expansion of the system reduces the applicability of such a semiclassical approach as the CSA making quantum corrections important. We calculate the evolution of the trace of the energy-momentum tensor within the Keldysh-Schwinger framework for static and longitudinal expanding geometries. We provide analytical and numerical arguments for the appearance of the nontrivial intermediate regime where quantum corrections are significant.
In-Plane and Out-of-Plane Charge Dynamics of High-$T_c$ Cuprates
Creators: name: van der Marel, Dirk
name: Kim, Jae H.
Publisher: name: arXiv
Year: 1995
Subjects: subject: Condensed Matter (cond-mat)
subject: FOS: Physical sciences

description: We propose a theoretical expression for the $k$- and $ω$-dependent dielectric function of a stack of two-dimensional layers coupled along the direction perpendicular to the layers, and discuss some of its properties. We argue that the plasma frequencies at $k=0$ should correspond to those which are experimentally obtained from optical measurements on {\em e.g.} La$_{1-x}$Sr$_{x}$CuO$_4$ via the $f$-sum rule analysis, regardless of the fact that such systems are strongly correlated. We discuss some of the ramifications due to strong anisotropy of the charge transport in these systems, and the lack of coherence for the transport in the direction perpendicular to the layers.
description: 8 pages, postscript, uuencoded gz-compressed .tar file
Essential Open Source Software for Science: Lessons learned in designing a program to sustain the computational foundations of modern biomedicine
Creators: name: Taraborelli, Dario
Publisher: name: Zenodo
Year: 2019
Subjects: open source
research software
sustainability
open science

description: Open source software is a key ingredient of modern science. Hundreds of software packages, libraries and applications have become essential tools for biomedical research. However, despite their importance, the majority of these tools are undervalued and often lack funding for maintenance, growth, development and community engagement , especially after their initial phase.

 In 2019, we designed and launched a new grants program to support open source projects that are critical to science. Funding from the Chan Zuckerberg Initiative will provide projects with resources to support their tools and the communities behind them, whether fixing bugs, improving documentation, addressing usability, managing the project, or building community. To complement existing efforts, we will be supporting both domain-specific tools, and cross-cutting foundational tools and infrastructure. We will also not require that proposed work be linked to novel research. In designing this program, we sought advice from several experts on scientific software and open source sustainability, in an effort to ensure that this program meets the needs of its community.

 This talk will cover the challenges faced and lessons learned during the design and launch of the program. It will also be an opportunity for participants to engage with us and critically analyze possibilities for supporting scientific open source software in the future.
Spaces of Remote Points
Creators: name: Hernández-Gutiérrez, Rodrigo
name: Hrušák, Michael
name: Tamariz-Mascarúa, Angel
Publisher: name: arXiv
Year: 2018
Subjects: subject: General Topology (math.GN)
subject: FOS: Mathematics
subject: 54D35, 54D40, 54G05, 54E50, 54E52, 54E18

description: Given a Tychonoff space $X$, let $\varrho(X)$ be the set of remote points of $X$. We view $\varrho(X)$ as a topological space. In this paper we assume that $X$ is metrizable and ask for conditions on $Y$ so that $\varrho(X)$ is homeomorphic to $\varrho(Y)$. This question has been studied before by R. G. Woods and C. Gates. We give some results of the following type: if $X$ has topological property $\mathbf{P}$ and $\varrho(X)$ is homeomorphic to $\varrho(Y)$, then $Y$ also has $\mathbf{P}$. We also characterize the remote points of the rationals and irrationals up to some restrictions. Further, we show that $\varrho(X)$ and $\varrho(Y)$ have open dense homeomorphic subspaces if $X$ and $Y$ are both nowhere locally compact, completely metrizable and share the same cellular type, a cardinal invariant we define.
Non-meager $P$-filters are Countable Dense Homogeneous
Creators: name: Hernández-Gutiérrez, Rodrigo
name: Hrušák, Michael
Publisher: name: arXiv
Year: 2018
Subjects: subject: General Topology (math.GN)
subject: FOS: Mathematics
subject: 54D80, 54H05, 54B10, 54A35

description: We prove that if $\mathcal{F}$ is a non-meager $P$-filter, then both $\mathcal{F}$ and ${}^ω\mathcal{F}$ are countable dense homogeneous spaces.
Inclusive Particle Production at LEP
Creators: name: Uvarov, V.
Publisher: name: arXiv
Year: 2000
Subjects: subject: High Energy Physics - Experiment (hep-ex)
subject: FOS: Physical sciences

description: New results on inclusive production of Sigma^- and Lambda(1520) and on proton production in quark and gluon jets are presented. These results are based on 2 million hadronic Z decays collected with the DELPHI detector at LEP. They are compared with the results of other LEP experiments and with models. It has been shown that the total production rates of all light-flavour hadrons measured so far at LEP 1 follow phenomenological laws related to the spin, isospin, strangeness and mass of the particles. A significant proton enhancement in gluon jets is observed, indicating that baryon production proceeds directly from colour objects.
description: LaTeX with moriond.sty; 4 pages with 2 eps-figures. Talk given at the 35th Rencontres de Moriond on QCD and High Energy Hadronic Interactions, Les Arcs, France, March 18-25, 2000. To be published in the Proceedings
Trogia infundibuliformis Berk. & Broome, J. Linn. Soc., Bot.
Creators: name: Karunarathna, Samantha C.
name: Priyashantha, K Hasith
name: Tibpromma, Saowaluck
name: Galappaththi, Mahesh C. A.
name: Premarathne, Bhagya M.
name: Wijayawardene, Nalin N.
name: Wimalasena, Madhara K.
name: Jayalal, Udeni
name: Wickramanayake, Kawmini D.
name: Dangalla, Hasanka
name: Jayathunga, Hashini
name: Brahmanage, Rashika S.
name: Weerakoon, Gothamie
name: Ariyawansa, Kahandawa G. S. U.
name: Yapa, Neelamanie
name: Nanayakkara, Chandrika M.
name: Ediriweera, Surani
name: Fan, Xin-Lei
name: Kirk, Paul M.
name: Zhang, Gui-Qing
name: Ediriweera, Aseni
name: Bhat, Jayarama
name: Dawoud, Turki M.
name: Kumara, Wasantha
name: Deng, Chun Ying
Publisher: name: Zenodo
Year: 2023
Subjects: Biodiversity
Taxonomy
Fungi
Basidiomycota
Agaricomycetes
Agaricales
Marasmiaceae
Trogia
Trogia infundibuliformis

description: T. infundibuliformis Berk. & Broome, J. Linn. Soc., Bot. 14 (no. 73): 45 (1873) [1875]/IF: 174894
Typification Details: Holotype K (M) 125812, Sri Lanka
Reference: Berkeley & Broome (1875)
description: Published as part of Karunarathna, Samantha C., Priyashantha, K Hasith, Tibpromma, Saowaluck, Galappaththi, Mahesh C. A., Premarathne, Bhagya M., Wijayawardene, Nalin N., Wimalasena, Madhara K., Jayalal, Udeni, Wickramanayake, Kawmini D., Dangalla, Hasanka, Jayathunga, Hashini, Brahmanage, Rashika S., Weerakoon, Gothamie, Ariyawansa, Kahandawa G. S. U., Yapa, Neelamanie, Nanayakkara, Chandrika M., Ediriweera, Surani, Fan, Xin-Lei, Kirk, Paul M., Zhang, Gui-Qing, Ediriweera, Aseni, Bhat, Jayarama, Dawoud, Turki M., Kumara, Wasantha & Deng, Chun Ying, 2023, Checklist, typification details, and nomenclature status of Basidiomycota, originally described from Sri Lanka, pp. 1-86 in Phytotaxa 621 (1) on page 41, DOI: 10.11646/phytotaxa.621.1.1, http://zenodo.org/record/10065102
Bose-Einstein Correlations in a Space-Time Approach to e+ e- Annihilation into Hadrons
Creators: name: Geiger, K.
name: Ellis, J.
name: Heinz, U.
name: Wiedemann, U. A.
Publisher: name: arXiv
Year: 1998
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: A new treatment of Bose-Einstein correlations is incorporated in a space-time parton-shower model for e+ e- annihilation into hadrons. Two alternative afterburners are discussed, and we use a simple calculable model to demonstrate that they reproduce successfully the size of the hadron emission region. One of the afterburners is used to calculate two-pion correlations in e+ e- -> Z^0 -> hadrons and e+ e- -> W+ W- -> hadrons. Results are shown with and without resonance decays, for correlations along and transverse to the thrust jet axis in these two classes of events.
description: 30 pages, Latex, 8 figures
Emergence of non-Fourier hierarchies
Creators: name: Fülöp, Tamás
name: Kovács, Róbert
name: Lovas, Ádám
name: Rieth, Ágnes
name: Fodor, Tamás
name: Szücs, Mátyás
name: Ván, Péter
name: Gróf, Gyula
Publisher: name: arXiv
Year: 2018
Subjects: subject: Statistical Mechanics (cond-mat.stat-mech)
subject: FOS: Physical sciences

description: The non-Fourier heat conduction phenomenon on room temperature is analyzed from various aspects. The first one shows its experimental side, in what form it occurs and how we treated it. It is demonstrated that the Guyer-Krumhansl equation can be the next appropriate extension of Fourier's law for room temperature phenomena in modeling of heterogeneous materials. The second approach provides an interpretation of generalized heat conduction equations using a simple thermomechanical background. Here, Fourier heat conduction is coupled to elasticity via thermal expansion, resulting in a particular generalized heat equation for the temperature field. Both of the aforementioned approaches show the size dependency of non-Fourier heat conduction. Finally, a third approach is presented, called pseudo-temperature modeling. It is shown that non-Fourier temperature history can be produced by mixing different solutions of Fourier's law. That kind of explanation indicates the interpretation of underlying heat conduction mechanics behind non-Fourier phenomena.
title: Understanding childhood and play in the post-digital age
Creators: name: Nelson, Elizabeth Lucy
Publisher: name: University of Glasgow
Year: 2021

description: This qualitative study utilises novel methodologies that draw on the history of childhood, children’s literature and play to make visible children’s experiences of contemporary childhood. Formulating a hybrid paradigm that draws on the social sciences and the humanities through new materialist perspectives of entanglement and “more-than-human” approaches, the study questions how children are producing and performing play and childlore in the post-digital age, to examine the implications of these children’s play choices for understanding childhood today. Central to the project is the examination of children’s experiences of childhood and their part in produsing (producing and using [Bruns, 2009]) their own experiences and “texts” of childhood in the post-digital age. The approach builds on the work of British folklorists and anthologists of children’s playground games over the past 125 years (Gomme, 1894/8; Opie and Opie, 1959; and Roud, 2011). These field-defining anthologies serve as a both a foundation for the research design and a starting place from which to understand and recognize children’s play in the post-digital age. Working with 18 children aged 6-13 years old in two schools and one afterschool care centre, I use creative methods of filmmaking to examine how children perform and produce their experiences of childhood in play. The children in the study playfully interacted with introduced digital technologies (digital tablets and cameras) in response to the invitation to “play and make videos”. The resultant children’s video productions, which I term video-play-texts, reveal the multiple, layered meanings and performances illustrated through the creation of these “texts of childhood”. My analysis draws on historical and literary descriptions of play and childhood to read the children’s performances as games, lore and mischief. I take up Bernstein’s (2011) concept of a “scriptive thing” to examine how environment, materials and people prompt performances of play in which children work to agentively rescript their experiences of the “research playgrounds”. My study found that engaging new materialist understandings with a “more than words” approach to the children’s performances of play highlighted the complex and layered literacies and funds of knowledge the children bring to their practice of produsing and rescripting in play. Further, I found that positioning children as both “beings” and “becomings” resulted in shining critical light onto how my participants agentively make meaning and negotiate identities across a multitude of spaces (including “schooled” environments, the playground and digital platforms). A documentary composed of the participants’ play-video-texts and my observational videos accompanies the thesis and will be an integral part of its dissemination in academic and public forums.
Development of new amphiphilic bio-organic assemblies for potential applications in iron-binding and targeting tumor cells
Creators: name: Hugo, Mindy M.
name: Ipsita A. Banerjee
Publisher: name: Taylor & Francis
Year: 2018
Subjects: subject: Biochemistry
subject: Molecular Biology
subject: Pharmacology
subject: Biotechnology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Cancer
subject: Hematology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Iron overload has been implicated in the pathogenesis of many neurodegenerative diseases, cancer and thalassemia. In this work, we have developed new supramolecular assemblies as potential iron chelators for mitigating iron overload at the cellular level. We utilized fluorenyl-based building blocks that were functionalized with ethylene diamine (Fmoc-Ed) or arginine (Fmoc-Arg). Fmoc-Ed was further conjugated with ureido propionic acid (UDP) or pyrazole-3-carboxylic acid (PCA). Each of the building blocks were self-assembled into nanovesicles or fibers and further functionalized with the transferrin receptor binding peptide THRPPMWSPVWP (Tf) to promote receptor mediated cellular uptake. Our results indicated that the assemblies were able to target HeLa cells, induce apoptosis, ROS formation and were able to penetrate the cells. The degree of cellular impact was dependent upon the structure of the assemblies. The effects were more prominent under iron overload conditions compared to normal growth conditions. Our results suggest that such nanoscale assemblies may open new avenues for further studies into iron chelation and mitigation of iron overload using Fmoc-functionalized building blocks.
Countable Dense Homogeneity and the Double Arrow Space
Creators: name: Hernández-Gutiérrez, Rodrigo
Publisher: name: arXiv
Year: 2018
Subjects: subject: General Topology (math.GN)
subject: FOS: Mathematics
subject: 54B10, 54D65, 54F05

description: Let $\mathbb{A}$ denote the Alexandroff-Urysohn double arrow space. We prove the following results: (a) $\mathbb{A}\times{}^ω{2}$ is not countable dense homogeneous; (b) ${}^ω{\mathbb{A}}$ is not countable dense homogeneous; (c) $\mathbb{A}$ has exactly $\mathfrak{c}$ types of countable dense subsets. These results answer questions by Arhangel'ski\uı, Hrušák and van Mill.
Guepinia palmiceps Berk., Ann. Mag.
Creators: name: Karunarathna, Samantha C.
name: Priyashantha, K Hasith
name: Tibpromma, Saowaluck
name: Galappaththi, Mahesh C. A.
name: Premarathne, Bhagya M.
name: Wijayawardene, Nalin N.
name: Wimalasena, Madhara K.
name: Jayalal, Udeni
name: Wickramanayake, Kawmini D.
name: Dangalla, Hasanka
name: Jayathunga, Hashini
name: Brahmanage, Rashika S.
name: Weerakoon, Gothamie
name: Ariyawansa, Kahandawa G. S. U.
name: Yapa, Neelamanie
name: Nanayakkara, Chandrika M.
name: Ediriweera, Surani
name: Fan, Xin-Lei
name: Kirk, Paul M.
name: Zhang, Gui-Qing
name: Ediriweera, Aseni
name: Bhat, Jayarama
name: Dawoud, Turki M.
name: Kumara, Wasantha
name: Deng, Chun Ying
Publisher: name: Zenodo
Year: 2023
Subjects: Biodiversity
Taxonomy
Fungi
Basidiomycota
Agaricomycetes
Auriculariales
Marasmiaceae
Guepinia
Guepinia palmiceps

description: G. palmiceps Berk., Ann. Mag. nat. Hist., Ser. 1 10: 383 (1843) [1842]/IF: 183900
Typification Details: Holotype K (M) 180813
Reference: Berkeley (1843)
description: Published as part of Karunarathna, Samantha C., Priyashantha, K Hasith, Tibpromma, Saowaluck, Galappaththi, Mahesh C. A., Premarathne, Bhagya M., Wijayawardene, Nalin N., Wimalasena, Madhara K., Jayalal, Udeni, Wickramanayake, Kawmini D., Dangalla, Hasanka, Jayathunga, Hashini, Brahmanage, Rashika S., Weerakoon, Gothamie, Ariyawansa, Kahandawa G. S. U., Yapa, Neelamanie, Nanayakkara, Chandrika M., Ediriweera, Surani, Fan, Xin-Lei, Kirk, Paul M., Zhang, Gui-Qing, Ediriweera, Aseni, Bhat, Jayarama, Dawoud, Turki M., Kumara, Wasantha & Deng, Chun Ying, 2023, Checklist, typification details, and nomenclature status of Basidiomycota, originally described from Sri Lanka, pp. 1-86 in Phytotaxa 621 (1) on page 41, DOI: 10.11646/phytotaxa.621.1.1, http://zenodo.org/record/10065102
The Los Alamos Trapped Ion Quantum Computer Experiment
Creators: name: Hughes, R. J.
name: James, D. F. V.
name: Gomez, J. J.
name: Gulley, M. S.
name: Holzscheiter, M. H.
name: Kwiat, P. G.
name: Lamoreaux, S. K.
name: Peterson, C. G.
name: Sandberg, V. D.
name: Schauer, M. M.
name: Simmons, C. M.
name: Thorburn, C. E.
name: Tupa, D.
name: Wang, P. Z.
name: White, A. G.
Publisher: name: arXiv
Year: 1997
Subjects: subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: The development and theory of an experiment to investigate quantum computation with trapped calcium ions is described. The ion trap, laser and ion requirements are determined, and the parameters required for quantum logic operations as well as simple quantum factoring are described.
description: 41 pages, 16 figures, submitted to Fortschritte der Physik
Xerocomus sylvestris Petch
Creators: name: Karunarathna, Samantha C.
name: Priyashantha, K Hasith
name: Tibpromma, Saowaluck
name: Galappaththi, Mahesh C. A.
name: Premarathne, Bhagya M.
name: Wijayawardene, Nalin N.
name: Wimalasena, Madhara K.
name: Jayalal, Udeni
name: Wickramanayake, Kawmini D.
name: Dangalla, Hasanka
name: Jayathunga, Hashini
name: Brahmanage, Rashika S.
name: Weerakoon, Gothamie
name: Ariyawansa, Kahandawa G. S. U.
name: Yapa, Neelamanie
name: Nanayakkara, Chandrika M.
name: Ediriweera, Surani
name: Fan, Xin-Lei
name: Kirk, Paul M.
name: Zhang, Gui-Qing
name: Ediriweera, Aseni
name: Bhat, Jayarama
name: Dawoud, Turki M.
name: Kumara, Wasantha
name: Deng, Chun Ying
Publisher: name: Zenodo
Year: 2023
Subjects: Biodiversity
Taxonomy
Fungi
Basidiomycota
Agaricomycetes
Boletales
Boletaceae
Xerocomus
Xerocomus sylvestris

description: B.  sylvestris Petch [as ‘silvestris’], Ann. R. bot. Gdns Peradeniya 7 (4): 283 (1922) /IF: 279642
 Current name: Xerocomus sylvestris (Petch) Pegler, Kew Bull., Addit. Ser. 12: 469 (1986) (New classification: Boletaceae, Boletales, Agaricomycetes)
Typification Details: Holotype PDA 2990, On soil, Sri Lanka
Reference: Petch (1922)
description: Published as part of Karunarathna, Samantha C., Priyashantha, K Hasith, Tibpromma, Saowaluck, Galappaththi, Mahesh C. A., Premarathne, Bhagya M., Wijayawardene, Nalin N., Wimalasena, Madhara K., Jayalal, Udeni, Wickramanayake, Kawmini D., Dangalla, Hasanka, Jayathunga, Hashini, Brahmanage, Rashika S., Weerakoon, Gothamie, Ariyawansa, Kahandawa G. S. U., Yapa, Neelamanie, Nanayakkara, Chandrika M., Ediriweera, Surani, Fan, Xin-Lei, Kirk, Paul M., Zhang, Gui-Qing, Ediriweera, Aseni, Bhat, Jayarama, Dawoud, Turki M., Kumara, Wasantha & Deng, Chun Ying, 2023, Checklist, typification details, and nomenclature status of Basidiomycota, originally described from Sri Lanka, pp. 1-86 in Phytotaxa 621 (1) on page 42, DOI: 10.11646/phytotaxa.621.1.1, http://zenodo.org/record/10065102
Conformational statistics of randomly-branching double-folded ring polymers
Creators: name: Rosa, Angelo
name: Everaers, Ralf
Publisher: name: arXiv
Year: 2018
Subjects: subject: Soft Condensed Matter (cond-mat.soft)
subject: FOS: Physical sciences

description: The conformations of topologically constrained double-folded ring polymers can be described as wrappings of randomly branched primitive trees. We extend previous work on the tree statistics under different (solvent) conditions to explore the conformational statistics of double-folded rings in the limit of tight wrapping. In particular, we relate the exponents characterizing the ring statistics to those describing the primitive trees and discuss the distribution functions $p(\vec r | \ell)$ and $p(L | \ell)$ for the spatial distance, $\vec r$, and tree contour distance, $L$, between monomers as a function of their ring contour distance, $\ell$.
description: 12 pages, 8 figures, 3 tables
Patient and treatment pathways for toxoplasmosis in the United States: data analysis of the Vizient Health Systems Data from 2011 to 2017
Creators: name: Belk, Kathy
name: Connolly, Mark P.
name: Schlesinger, Lisa
name: Ben-Harari, Ruben R.
Publisher: name: Taylor & Francis
Year: 2018
Subjects: subject: Medicine
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: FOS: Biological sciences
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Cancer
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Computational Biology

description: Toxoplasmosis causes substantial morbidity and mortality in the United States (US). Clinical manifestations to toxoplasmosis vary and there is limited information on incidence or treatment patterns in the US. Treatment pathways for pyrimethamine-based regimens and trimethoprim-sulfamethoxazole (TMP-SMX) for toxoplasmosis hospitalizations were investigated using the Vizient Health Systems inpatient and outpatient data. Between January 1st, 2011 and December 31st, 2017, 10,273 hospital visits from 4,736 unique patients received a primary or secondary ICD-9/ICD-10 diagnosis for toxoplasmosis. The projected annual hospital visits with a diagnosis of toxoplasmosis was 68,821, corresponding to a total annual incidence of 9,832 comprising ocular toxoplasmosis of 2,169, toxoplasmic encephalitis of 1,399, unspecified toxoplasmosis of 4,368, congenital toxoplasmosis of 381, multisystemic toxoplasmosis of 69 and other toxoplasmosis of 1,446. Only 16.3% of the study population received treatment with pyrimethamine-based regimens or TMP-SMX. Pyrimethamine-based regimens were used significantly more often than TMP-SMX in toxoplasmic encephalitis (88.7% vs 79.6%, p = 0.01), other toxoplasmosis (85.0% vs 79.2%, p = 0.04), and unspecified toxoplasmosis (87.6% vs 77.9%, p = 0.03) in hospitals with 300 beds or more. A significantly higher percentage of visits with TMP-SMX as first-line treatment switched to pyrimethamine-based regimens compared to visits initiated on pyrimethamine-based treatments (26.7% vs 4.1%, p