cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Origin of ultrastability in vapor-deposited glasses
Creators: name: Berthier, Ludovic
name: Charbonneau, Patrick
name: Flenner, Elijah
name: Zamponi, Francesco
Publisher: name: arXiv
Year: 2017
Subjects: subject: Soft Condensed Matter (cond-mat.soft)
subject: FOS: Physical sciences

description: Glass films created by vapor-depositing molecules onto a substrate can exhibit properties similar to those of ordinary glasses aged for thousands of years. It is believed that enhanced surface mobility is the mechanism that allows vapor deposition to create such exceptional glasses, but it is unclear how this effect is related to the final state of the film. Here we use molecular dynamics simulations to model vapor deposition and an efficient Monte Carlo algorithm to determine the deposition rate needed to create ultra-stable glassy films. We obtain a scaling relation that quantitatively captures the efficiency gain of vapor deposition over bulk annealing, and demonstrates that surface relaxation plays the same role in the formation of vapor-deposited glasses as bulk relaxation does in ordinary glass formation.
description: Five pages and five figures. Data relevant to this work have been archived and can be accessed at https://doi.org/10.7924/G8P26W5G
INVASIVE LIANA HEDERA HELIX (ENGLISH IVY) IMPACTS ON ECOLOGICAL CHARACTERISTICS AND NUTRIENT CYCLING IN BALTIMORE FOREST PATCHES
Creators: name: Shdaimah, Elad
Publisher: name: Digital Repository at the University of Maryland
Year: 2023
Subjects: subject: Urban forestry
subject: Ecology
subject: FOS: Biological sciences
subject: Environmental science
subject: Baltimore
subject: Ecosystem Services
subject: Hedera helix
subject: Invasive Plants
subject: Nutrient Cycling
subject: Urban Forest Patch

description: The effects of invasive plants on forest ecology and nutrient cycling are highly variable and poorly understood. Many studies have found that species and location make each plant invasion unique. Thus, studying invasive plants on the species and local level is necessary to understand how they impact ecosystems and how to manage them. Ninety-four percent of forest patches in Baltimore contain invasive plants. Hedera helix is one of the most prominent. My study explores how different characteristics and intensities of H. helix invasion impact ecology and nutrient cycling in Baltimore forest patches. I analyzed canopy structure, litter properties, soil properties, and steps of C and N cycling in forest patch plots. I compared findings across the invasion characteristics: presence, canopy invasion intensity, and ground cover presence. My study revealed that invasion characteristics and location strongly influence the impact of H. helix on Baltimore forest patch plots. The presence of ground cover appeared to be dictated by soil hydrology, which varied by location. Invaded plots with ground cover had significantly altered soil properties, increased soil respiration rates (2.86 times greater than control plots, p = 0.047), and may have increased decomposition rates. These differences in C cycling metrics appear to be driven by altered soil temperature, structure, and chemistry (i.e., 1.62 times more TN than control plots, p = 0.022). Canopy invasions may have caused tree loss and altered canopy structure, which indicate potentially negative consequences for forest patch ecology in the future. pH may have been higher in the presence of H. helix (1.17 times higher pH than control plots, p = 0.090). Several ecological characteristics and nutrient cycling variables may have also been more variable in the presence of H. helix. No significant differences were detected in N cycling due to invasion. These findings can help Baltimore forest patch managers to assess problematic H. helix invasions and allocate resources to control it when necessary. They also lay out further groundwork for plant invasion research, demonstrating the necessity of species-specific, location-specific studies.
Un antico caso di cronaca. Nota ad Ascon. 32, 24 C
Creators: name: Galli, Lucia
Publisher: name: Ciceroniana on line
Year: 2019

description: The paper argues that, as the evidence currently stands, the text that most closely approximates the original at in Asconius 32.24 C is compluresque noti homines elisi sunt, inter quos †C. vibiennius† senator. L’articolo si propone di dimostrare che, allo stato attuale delle nostre conoscenze, in Asconio 32, 24 C la sistemazione del testo che si avvicina il più possibile all’originale è compluresque noti homines elisi sunt, inter quos †C. vibiennius† senator. L’article vise à démontrer que, dans l’état actuel de nos connaissances, dans Asc. 32, 24 C, la disposition du texte qui se rapproche le plus possible de l’original est compluresque noti homines elisi sunt, inter quos †C. vibiennius† senator.
description: Ciceroniana on line, V. 3 N. 1 (2019)
All-atom simulations reveal how single point mutations promote serpin misfolding
Creators: name: Wang, Fang
name: Orioli, Simone
name: Ianeselli, Alan
name: Spagnolli, Giovanni
name: Beccara, Silvio a
name: Gershenson, Anne
name: Faccioli, Pietro
name: Wintrode, Patrick L.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Biomolecules (q-bio.BM)
subject: Soft Condensed Matter (cond-mat.soft)
subject: Biological Physics (physics.bio-ph)
subject: FOS: Biological sciences
subject: FOS: Physical sciences

description: Protein misfolding is implicated in many diseases, including the serpinopathies. For the canonical inhibitory serpin α1-antitrypsin (A1AT), mutations can result in protein deficiencies leading to lung disease, and misfolded mutants can accumulate in hepatocytes leading to liver disease. Using all-atom simulations based on the recently developed Bias Functional algorithm we elucidate how wild-type A1AT folds and how the disease-associated S (Glu264Val) and Z (Glu342Lys) mutations lead to misfolding. The deleterious Z mutation disrupts folding at an early stage, while the relatively benign S mutant shows late stage minor misfolding. A number of suppressor mutations ameliorate the effects of the Z mutation and simulations on these mutants help to elucidate the relative roles of steric clashes and electrostatic interactions in Z misfolding. These results demonstrate a striking correlation between atomistic events and disease severity and shine light on the mechanisms driving chains away from their correct folding routes.
description: Final version. Supplementary Information included
Echo-character of the NW Iberian continental margin and the adjacent abyssal plains
Creators: name: Maestro, Adolfo
name: Jané, Gloria
name: Fernández-Saéz, Fernando
name: Llave, Estefania
name: Bohoyo, Fernando
name: Navas, Javier
name: Mink, Sandra
name: Gómez-Ballesteros, Maria
name: Martín-Dávila, José
name: Catalán, Manuel
Publisher: name: Taylor & Francis
Year: 2018
Subjects: subject: 29999 Physical Sciences not elsewhere classified
subject: FOS: Physical sciences
subject: Cell Biology
subject: Neuroscience
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: FOS: Biological sciences
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified

description: The acoustic facies analyses have provided an important basis for sedimentary processes in the deep-sea environments. The echo-character mapping, through the interpretation and correlation of very high-resolution seismic profiles, is a very useful tool for the characterization of the recent sedimentary processes and their distribution. This work presents the first echo-character map at 1:800,000 scale of the Galicia Continental Margin and the adjacent abyssal plains elaborated by the Geological Survey of Spain. The map was carried out on the basis of the analysis and interpretation of the bathymetry and reflectivity data from the SIMRAD EM12, EM120 and EM1002 echosounders, and the high-resolution seismic profiles from the SIMRAD TOPAS PS18 parametric echosounder. On the basis of seafloor morphology, surface bedforms, backscatter and sub-bottom acoustic echo-characters, 26 echo-types were identified in the uppermost sedimentary sequence. These echo-types have been grouped into four main echoes: Distinct, Irregular, Hyperbolic and Undulated, according to their main acoustic characteristics. This information has been acquired in the framework of the ‘Scientific Research Program of the Economic Exclusive Zone of Spain’, which is coordinated and leaded by the Defense Ministry of Spain, during the oceanographic cruises carried out on board of the R/V Hesperides in 2001–2003 and 2006–2009.
title: ADCO, Grènetier de Cîteaux : comptes (1499-1503) (11 H 1173), f. 00083
Creators: name: de la Côte-d'Or, Archives départementales
name: Archives Départementales De La Côte-D'Or
name: Petot, Frédérique
name: Projet CBMA
name: CBMA/CG21/F.PETOT/2019
name: Petot, Frédéric
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2020
Subjects: subject: Corpus Burgundiae Medii Aevi
subject: Chartes de la Bourgogne du Moyen Âge
subject: comptes
subject: LaMOP
subject: Laboratoire de Médiévistique Occidentale de Paris

description: Grènetier de Cîteaux : comptes (1499-1503), Archives départementales de la Côte-d'Or, (11 H 1173). Numérisation en mode image.
description: Relation: http://www.cbma-project.eu/
description: Bibliographic citation: Grènetier de Cîteaux : comptes (1499-1503), Archives départementales de la Côte-d'Or, (11 H 1173), f. 00083, in Projet CBMA - Corpus Burgundiae Medii Aevi [Ressource en ligne], https://manuscrits.cbma-project.eu/
description: Provenance: https://www.geonames.org/3024876
description: Provenance: http://www.idref.fr/030974844/id
description: Provenance: https://catalogue.bnf.fr/ark:/12148/cb12228351v
description: Provenance: abbaye de Cîteaux
description: Provenance: http://www.wikidata.org/entity/Q843261
Cicerone, Orazio e il De rerum natura: un rapportarsi (in)consapevole. La prima trasmissione del naturalismo linguistico epicureo-lucreziano in Cicerone e Orazio
Creators: name: Vitali, Valentina
Publisher: name: Ciceroniana on line
Year: 2019

description: Lo studio della tradizione del poema di Lucrezio ha sempre presentato difficoltà oggettive, dato il silenzio intorno alla sua opera. Ciò nonostante, com’è noto, sono molti i contributi che esaminano la storia dell’opera dal momento del suo ritrovamento nel Quattrocento e che si concentrano sul suo ruolo nella costruzione della Modernità. L’oggetto di questo contributo riguarda, invece, la prima influenza del De rerum natura all’interno della visione linguistico-filosofica di Cicerone e Orazio e vuole mettere in luce come, anche grazie alla trasmissione delle tematiche linguistiche da parte di questi ultimi, sia possibile ricostruire la diffusione e lo sviluppo, dalla prima Modernità in poi, del naturalismo linguistico epicureo-lucreziano. Per rintracciare tale dimensione, ancora poco studiata dalla critica, vengono indagate le opere retoriche di Cicerone (analisi preceduta da una necessaria introduzione sui rapporti tra l’Arpinate e la filosofia del Kepos) e parte della produzione poetica di Orazio, individuando due fondamentali motivi che dipendono dagli insegnamenti del Giardino: i) il problema del significato in relazione alla conoscenza della realtà e ii) la preminenza della natura sull’ars nei fatti di lingua. Attraverso lo studio della ricezione e della rielaborazione di tali tematiche è possibile aggiungere nuovi importanti tasselli, non solo alla storia delle idee linguistiche, ma anche al mosaico che ricostruisce la tradizione del poema di Lucrezio e della filosofia epicurea. Critical studies about the tradition of Lucretius’ poem have always been problematic, because of the silence around his work. Nonetheless, researchers have shown an increased interest in the history of the De rerum natura – right from its discovery in the Fifteenth century – as well as in its role in the making of Modernity. This paper focuses on the first influence of the De rerum natura in both Cicero’s and Horace’s linguistic-philosophical views, while attempting to show that it is indeed possible to retrace the circulation and the development of the Epicurean-Lucretian linguistic naturalism, thanks to the transmission of linguistic themes by these authors. This essay seeks to investigate this paradigm by analysing both the rhetorical works of Cicero and part of the poetic production of Horace. We point out two fundamental patterns of epicurean teachings: i) the problem of meaning in relation to the knowledge of reality and ii) the primacy of natura over ars in language facts. Through the study of the reception and re-elaboration of these themes, it is possible to gain some insight not only into the history of linguistic ideas, but also into the tradition of Lucretius’s poem and Epicurean philosophy.
description: Ciceroniana on line, V. 3 N. 1 (2019)
Magnetic anisotropy of the alkali iridate Na$_{2}$IrO$_{3}$ at high magnetic fields: evidence for strong ferromagnetic Kitaev correlations
Creators: name: Das, Sitikantha. D
name: Kundu, Sarbajaya
name: Zhu, Zengwei
name: Mun, Eundeok
name: McDonald, Ross D.
name: Li, Gang
name: Balicas, Luis
name: McCollam, Alix
name: Cao, Gang
name: Rau, Jeffrey. G.
name: Kee, Hae-Young
name: Tripathi, Vikram
name: Sebastian, Suchitra E.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: FOS: Physical sciences

description: The magnetic field response of the Mott-insulating honeycomb iridate Na$_{2}$IrO$_{3}$ is investigated using torque magnetometry measurements in magnetic fields up to 60 tesla. A peak-dip structure is observed in the torque response at magnetic fields corresponding to an energy scale close to the zigzag ordering ($\approx 15~K$) temperature. Using exact diagonalization calculations, we show that such a distinctive signature in the torque response constrains the effective spin models for these classes of Kitaev materials to ones with dominant ferromagnetic Kitaev interactions, while alternative models with dominant antiferromagnetic Kitaev interactions are excluded. We further show that at high magnetic fields, long range spin correlation functions decay rapidly, signaling a transition to a long-sought-after field-induced quantum spin liquid beyond the peak-dip structure. Kitaev systems are thus revealed to be excellent candidates for field-induced quantum spin liquids, similar physics having been suggested in another Kitaev material $α-$RuCl$_{3}$.
description: 12 pages, 20 figures; text modified, one figure shifted to main text, table added to main text
Bulletin bibliographique – Bollettino bibliografico
Creators: name: Raschieri, Amedeo Alessandro
Publisher: name: Ciceroniana on line
Year: 2019

description: Il Bollettino presenta in ordine alfabetico tutti i titoli segnalati durante il semestre precedente dalla Newsletter on line (http://www.tulliana.eu/sub_newsletter.php?LANG=I) gratuita della SIAC, che viene inviata agli iscritti ogni due settimane
description: Ciceroniana on line, V. 3 N. 1 (2019)
Corollospora angusta Nakagiri et Tokura, Trans. Mycol. Soc.
Creators: name: Tibell, Sanja
name: Tibell, Leif
name: Pang, Ka-Lai
name: Jones, E. B. Gareth
Publisher: name: Zenodo
Year: 2019
Subjects: Biodiversity
Taxonomy
Fungi
Ascomycota
Sordariomycetes
Microascales
Halosphaeriaceae
Corollospora
Corollospora angusta

description: 11. Corollospora angusta Nakagiri et Tokura, Trans. Mycol. Soc. Japan 28(4): 417 (1988) [1987] (Figure 2B)
 Substrate and distribution: Marine wood. Bohuslän, Skaftö par., Fiskebäckskil, Bökevik, 58°14′51″N, 11°27′10″E. VI 2017. New to Sweden.
 Notes: This species also shows large disjunctions in its distribution, having been described from Japan, Portugal (Sridhar et al. 2013) and Korea (Hong et al. 2015).
description: Published as part of Tibell, Sanja, Tibell, Leif, Pang, Ka-Lai & Jones, E. B. Gareth, 2020, A conspectus of the filamentous marine fungi of Sweden, pp. 141-153 in Botanica Marina (Warsaw, Poland) (Warsaw, Poland) 63 (2) on page 144, DOI: 10.1515/bot-2018-0114, http://zenodo.org/record/11360145
Additional file 1 of Fulvic acid ameliorates drought stress-induced damage in tea plants by regulating the ascorbate metabolism and flavonoids biosynthesis
Creators: name: Sun, Jianhao
name: Qiu, Chen
name: Ding, Yiqian
name: Wang, Yu
name: Sun, Litao
name: Fan, Kai
name: Gai, Zhongshuai
name: Dong, Guoqiang
name: Wang, Jiguo
name: Li, Xinghui
name: Song, Lubin
name: Ding, Zhaotang
Publisher: name: figshare
Year: 2020
Subjects: subject: Genetics
subject: FOS: Biological sciences
subject: Plant Biology

description: Additional file 1. The water holding capacity of soil.
Black Hole Spin Axis in Numerical Relativity
Creators: name: Owen, Robert
name: Fox, Alex S.
name: Freiberg, John A.
name: Jacques, Terrence Pierre
Publisher: name: arXiv
Year: 2017
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: FOS: Physical sciences

description: Colliding black holes are systems of profound interest in both gravitational wave astronomy and in gravitation theory, and a variety of methods have been developed for modeling their dynamics in detail. The features of these dynamics are determined by the masses of the holes and by the magnitudes and axes of their spins. While masses and spin magnitudes can be defined in reasonably unambiguous ways, the spin axis is a concept which despite great physical importance is seriously undermined by the coordinate freedom of general relativity. Despite a great wealth of detailed numerical simulations of generic spinning black hole collisions, very little attention has gone into defining or justifying the definitions of the spin axis used in the numerical relativity literature. In this paper, we summarize and contrast the various spin direction measures available in the SpEC code, including a comparison with a method common in other codes, we explain why these measures have shown qualitatively different nutation features than one would expect from post-Newtonian theory, and we derive and implement new measures that give much better agreement.
description: 21 pages, 14 figures. Version 2 is a substantial revision, with a much better treatment of rotation generators. Version 2 submitted to PRD
Principales Causas del Lavado de Activos y el Impacto Económico Financiero en las Empresas Bancarias de Tegucigalpa y sus Regulaciones.docx
Creators: name: Zuniga, Carmen
Publisher: name: figshare
Year: 2018
Subjects: subject: 150299 Banking, Finance and Investment not elsewhere classified
subject: FOS: Economics and business

description: En el año 2017 se llevó cabo el siguiente estudio, quien tiene como objetivo principal indicar las principales causas del lavado de activos en las instituciones financieras y el impacto económico que genera en Tegucigalpa, Honduras.
Considerando el gran impacto que produce el lavado de activo con la economía, el siguiente articulo consiste en el análisis de las consecuencias que producen el lavado de activos en las empresas bancarias y su impacto económico financiero, en la ciudad de Tegucigalpa departamento de Francisco Morazán (Honduras),para llevar a cabo la investigación fue necesario la utilización de una serie de cuestionarios aplicados al 54.83% del universo en Tegucigalpa, identificando las principales causas del lavado de activos y que recomendaciones aplicar para menguar el problema.
Comptes rendus – Recensioni
Creators: name: Malaspina, Ermanno
name: Rozzi, Stefano
name: Revello, Veronica
name: Piccioni, Francesca
name: Martino Piccolino, Giovanna
Publisher: name: Ciceroniana on line
Year: 2019

description: A. Rossi, La Natura degli Dei. De Natura Deorum (S. Rozzi) J. Wildberger, The Stoics and the State. Theory – Practice – Context (E. Malaspina) F. R. Berno, L. Anneo Seneca, De constantia sapientis. La fermezza del saggio (V. Revello) S. Audano, G. Cipriani (a cura di), Aspetti della Fortuna dell’Antico nella Cultura Europea. Atti della Quattordicesima Giornata di Studi (F. Piccioni) A. Prenner, Tenebre (G. Martino Piccolino)
description: Ciceroniana on line, V. 3 N. 1 (2019)
Saturation of entropy production in quantum many-body systems
Creators: name: Kaneko, Kazuya
name: Iyoda, Eiki
name: Sagawa, Takahiro
Publisher: name: arXiv
Year: 2017
Subjects: subject: Statistical Mechanics (cond-mat.stat-mech)
subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: Bridging the second law of thermodynamics and microscopic reversible dynamics has been a longstanding problem in statistical physics. We here address this problem on the basis of quantum many-body physics, and discuss how the entropy production saturates in isolated quantum systems under unitary dynamics. First, we rigorously prove the saturation of the entropy production in the long time regime, where a total system can be in a pure state. Second, we discuss the non-negativity of the entropy production at saturation, implying the second law of thermodynamics. This is based on the eigenstate thermalization hypothesis (ETH), which states that even a single energy eigenstate is thermal. We also numerically demonstrate that the entropy production saturates at a non-negative value even when the initial state of a heat bath is a single energy eigenstate. Our results reveal fundamental properties of the entropy production in isolated quantum systems at late times.
description: 10 pages, 4 figures
Biomass gasification with CO2 – influence of torrefaction and pelletization on the design parameters of a fixed bed gasifier
Creators: name: Pawlak-Kruczek, Halina
name: Arora, Amit
name: Mościcki, Krzysztof
name: Niedzwiecki, Lukasz
name: Krochmalny, Krystian
name: Baranowski, Marcin
name: Dawra, Nisha
name: Sharma, Anshul
name: Sharma, Tanuj
Publisher: name: figshare
Year: 2019
Subjects: classificationCode: 400402
subject: Chemical and thermal processes in energy and combustion

description: ISCP2019
Basnage, Henri, La coutume réformée du pays et duché de Normandie expliquée par plusieurs arrêts et règlemens et commentée, Rouen, Centurion et Jean Lucas, 1678
Creators: name: Basnage de Beauval, Henri
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2019

description: Source: https://books.google.fr/books?id=lz5v1FrfdgUC&printsec=frontcover&dq=inauthor:henri+inauthor:basnage&hl=fr&sa=X&redir_esc=y#v=onepage&q&f=false
description: Relation: vignette : https://www.nakala.fr/data/11280/265d5254
LEO-to-ground optical communications using SOTA (Small Optical TrAnsponder) - Payload verification results and experiments on space quantum communications
Creators: name: Carrasco-Casado, Alberto
name: Takenaka, Hideki
name: Kolev, Dimitar
name: Munemasa, Yasushi
name: Kunimori, Hiroo
name: Suzuki, Kenji
name: Fuse, Tetsuharu
name: Kubo-Oka, Toshihiro
name: Akioka, Maki
name: Koyama, Yoshisada
name: Toyoshima, Morio
Publisher: name: arXiv
Year: 2017
Subjects: subject: Space Physics (physics.space-ph)
subject: Instrumentation and Detectors (physics.ins-det)
subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: Free-space optical communications have held the promise of revolutionizing space communications for a long time. The benefits of increasing the bitrate while reducing the volume, mass and energy of the space terminals have attracted the attention of many researchers for a long time. In the last few years, more and more technology demonstrations have been taking place with participants from both the public and the private sector. The National Institute of Information and Communications Technology (NICT) in Japan has a long experience in this field. SOTA (Small Optical TrAnsponder) was the last NICT space lasercom mission, designed to demonstrate the potential of this technology applied to microsatellites. Since the beginning of SOTA mission in 2014, NICT regularly established communication using the Optical Ground Stations (OGS) located in the Headquarters at Koganei (Tokyo) to receive the SOTA signals, with over one hundred successful links. All the goals of the SOTA mission were fulfilled, including up to 10-Mbit/s downlinks using two different wavelengths and apertures, coarse and fine tracking of the OGS beacon, space-to-ground transmission of the on-board-camera images, experiments with different error correcting codes, interoperability with other international OGS, and experiments on quantum communications. The SOTA mission ended on November 2016, more than doubling the designed lifetime of 1-year. In this paper, the SOTA characteristics and basic operation are explained, along with the most relevant technological demonstrations.
description: 9 pages, 11 figures
Identification of anti-filarial leads against aspartate semialdehyde dehydrogenase of Wolbachia endosymbiont of Brugia malayi: combined molecular docking and molecular dynamics approaches
Creators: name: Mathimaran Amala
name: Sundaraj Rajamanikandan
name: Dhamodharan Prabhu
name: Kanagarajan Surekha
name: Jeyaraman Jeyakanthan
Publisher: name: Taylor & Francis
Year: 2018
Subjects: subject: Biochemistry
subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Pharmacology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Ecology
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Cancer
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Computational Biology

description: Lymphatic filariasis is a debilitating vector borne parasitic disease that infects human lymphatic system by nematode Brugia malayi. Currently available anti-filarial drugs are effective only on the larval stages of parasite. So far, no effective drugs are available for humans to treat filarial infections. In this regard, aspartate semialdehyde dehydrogenase (ASDase) in lysine biosynthetic pathway from Wolbachia endosymbiont Brugia malayi represents an attractive therapeutic target for the development of novel anti-filarial agents. In this present study, molecular modeling combined with molecular dynamics simulations and structure-based virtual screening were performed to identify potent lead molecules against ASDase. Based on Glide score, toxicity profile, binding affinity and mode of interactions with the ASDase, five potent lead molecules were selected. The molecular docking and dynamics results revealed that the amino acid residues Arg103, Asn133, Cys134, Gln161, Ser164, Lys218, Arg239, His246, and Asn321 plays a crucial role in effective binding of Top leads into the active site of ASDase. The stability of the ASDase-lead complexes was confirmed by running the 30 ns molecular dynamics simulations. The pharmacokinetic properties of the identified lead molecules are in the acceptable range. Furthermore, density functional theory and binding free energy calculations were performed to rank the lead molecules. Thus, the identified lead molecules can be used for the development of anti-filarial agents to combat the pathogenecity of Brugia malayi.
Revisit assignments of the new excited $Ω_c$ states with QCD sum rules
Creators: name: Wang, Zhi-Gang
name: Wei, Xing-Ning
name: Yan, Ze-Hui
Publisher: name: arXiv
Year: 2017
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: In this article, we distinguish the contributions of the positive parity and negative parity $Ω_c$ states, study the masses and pole residues of the 1S, 1P, 2S and 2P $Ω_c$ states with the spin $J=\frac{1}{2}$ and $\frac{3}{2}$ using the QCD sum rules in a consistent way, and revisit the assignments of the new narrow excited $Ω_c^0$ states. The predictions support assigning the $Ω_c(3000)$ to be the 1P $Ω_c$ state with $J^P={\frac{1}{2}}^-$, assigning the $Ω_c(3090)$ to be the 1P $Ω_c$ state with $J^P={\frac{3}{2}}^-$ or the 2S $Ω_c$ state with $J^P={\frac{1}{2}}^+$, and assigning $Ω_c(3119)$ to be the 2S $Ω_c$ state with $J^P={\frac{3}{2}}^+$.
description: 19 pages, 22 figures. arXiv admin note: text overlap with arXiv:1705.07745
Haligena elaterophora Kohlm.
Creators: name: Tibell, Sanja
name: Tibell, Leif
name: Pang, Ka-Lai
name: Jones, E. B. Gareth
Publisher: name: Zenodo
Year: 2019
Subjects: Biodiversity
Taxonomy
Fungi
Ascomycota
Sordariomycetes
Microascales
Halosphaeriaceae
Haligena
Haligena elaterophora

description: 22. Haligena elaterophora Kohlm., Nova Hedwigia 3: 87 (1961)
 Substrate and distribution: Marine wood. Medelpad, Södermanland, Uppland. Additional records: Bohuslän, Tjärnö par., Sydkoster, Långvik, 58°52′59″N, 11°00′32″E, marine driftwood, 20. VI 2017, ST 18-92, 102 (UPS).
 Notes: Reported by Henningsson (1974).
description: Published as part of Tibell, Sanja, Tibell, Leif, Pang, Ka-Lai & Jones, E. B. Gareth, 2020, A conspectus of the filamentous marine fungi of Sweden, pp. 141-153 in Botanica Marina (Warsaw, Poland) (Warsaw, Poland) 63 (2) on pages 145-146, DOI: 10.1515/bot-2018-0114, http://zenodo.org/record/11360145
Randomized Dimension Reduction for Monte Carlo Simulations
Creators: name: Kahale, Nabil
Publisher: name: arXiv
Year: 2017
Subjects: subject: Computation (stat.CO)
subject: FOS: Computer and information sciences

description: We present a new unbiased algorithm that estimates the expected value of f(U) via Monte Carlo simulation, where U is a vector of d independent random variables, and f is a function of d variables. We assume that f does not depend equally on all its arguments. Under certain conditions we prove that, for the same computational cost, the variance of our estimator is lower than the variance of the standard Monte Carlo estimator by a factor of order d. Our method can be used to obtain a low-variance unbiased estimator for the expectation of a function of the state of a Markov chain at a given time-step. We study applications to volatility forecasting and time-varying queues. Numerical experiments show that our algorithm dramatically improves upon the standard Monte Carlo method for large values of d, and is highly resilient to discontinuities.
description: 42 pages, 1 figure. A preliminary version has appeared at the 9th NIPS Workshop on Optimization for Machine Learning, Dec. 2016, Barcelona
Additional file 9: of Performance of the quick Sequential (sepsis-related) Organ Failure Assessment score as a prognostic tool in infected patients outside the intensive care unit: a systematic review and meta-analysis
Creators: name: Jae-Uk Song
name: Sin, Cheol
name: Park, Hye
name: Shim, Sung
name: Jonghoo Lee
Publisher: name: figshare
Year: 2018
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Molecular Biology
subject: 69999 Biological Sciences not elsewhere classified
subject: Science Policy
subject: 111714 Mental Health
subject: FOS: Health sciences
subject: 110309 Infectious Diseases

description: Summary receiver operating characteristic curves for (a) positive qSOFA score and (b) positive SIRS criteria for predicting ICU admission in infected patients outside the intensive care unit. (PDF 77 kb)
Alternaria maritima G. K. Sutherl.
Creators: name: Tibell, Sanja
name: Tibell, Leif
name: Pang, Ka-Lai
name: Jones, E. B. Gareth
Publisher: name: Zenodo
Year: 2019
Subjects: Biodiversity
Taxonomy
Fungi
Ascomycota
Dothideomycetes
Pleosporales
Pleosporaceae
Alternaria
Alternaria maritima

description: 1. Alternaria maritima G.K. Sutherl., New Phytol. 15: 46 (1916)
  Substrate and distribution: Zostera , brown and red algae and marine wood. Bohuslän, Västergötland.
 Notes: Also recorded by Erneholm (1972) and Henningsson (1974). Possibly only facultatively marine.
description: Published as part of Tibell, Sanja, Tibell, Leif, Pang, Ka-Lai & Jones, E. B. Gareth, 2020, A conspectus of the filamentous marine fungi of Sweden, pp. 141-153 in Botanica Marina (Warsaw, Poland) (Warsaw, Poland) 63 (2) on page 142, DOI: 10.1515/bot-2018-0114, http://zenodo.org/record/11360145
On the ghost issue of extended quasidilaton
Creators: name: Golovnev, Alexey
name: Trukhin, Aleksandr
Publisher: name: arXiv
Year: 2017
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: We report on our independent investigations of the puzzle of cosmological perturbations in extended quasidilaton. We confirm the claims of presence of the Boulware-Deser ghost. We use both the language of cosmological perturbations with broken diffeomorphisms and the Stuckelberg approach.
description: 6 pages; some formulae corrected; version accepted by PRD
Additional file 8: of Performance of the quick Sequential (sepsis-related) Organ Failure Assessment score as a prognostic tool in infected patients outside the intensive care unit: a systematic review and meta-analysis
Creators: name: Jae-Uk Song
name: Sin, Cheol
name: Park, Hye
name: Shim, Sung
name: Jonghoo Lee
Publisher: name: figshare
Year: 2018
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Molecular Biology
subject: Biotechnology
subject: 69999 Biological Sciences not elsewhere classified
subject: Science Policy
subject: 111714 Mental Health
subject: FOS: Health sciences
subject: 110309 Infectious Diseases

description: Paired forest plots of sensitivity and specificity of positive SIRS criteria in identifying ICU admission in infected patients outside the intensive care unit. (PDF 107 kb)
title: ADCO, Cartulaire de l'abbaye de Cîteaux dit Cartulare Antiquum t.2 (2e moitié XIIIe siècle), Cart. 167 (11 H 67), f. 0025r
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: Corpus Burgundiae Medii Aevi
subject: Chartes de la Bourgogne du Moyen Âge
subject: cartulaire
subject: LaMOP
subject: Laboratoire de Médiévistique Occidentale de Paris

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. 0025r, 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. 0025r, in Projet CBMA - Corpus Burgundiae Medii Aevi [Ressource en ligne], https:// manuscrits.cbma-project.eu/
description: Provenance: https://www.geonames.org/3024876
description: Provenance: http://www.idref.fr/030974844/id
description: Provenance: https://catalogue.bnf.fr/ark:/12148/cb12228351v
description: Provenance: http://www.wikidata.org/entity/Q843261
description: Provenance: abbaye de Cîteaux
On foot or by car: what determines children’s active school travel?
Creators: name: Schicketanz, Juliane
name: Röder, Stefan
name: Herberth, Gunda
name: Kabisch, Sigrun
name: Lakes, Tobia
Publisher: name: Taylor & Francis
Year: 2021
Subjects: subject: Neuroscience
subject: Physiology
subject: FOS: Biological sciences
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Science Policy
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Children’s active school travel can provide a daily source of physical activity, yet the number of children walking or biking to school is decreasing worldwide. This study analyses children’s active school travel, its individual, family, socioeconomic and environmental determinants and spatial pattern in Leipzig, Germany. We evaluated the school travel behaviour of 217 eight-year-olds from a prospective birth cohort study called LINA (Lifestyle and Environmental Factors and their Influence on Newborns Allergy Risk). Variables from the LINA questionnaire were combined with data from administrative bodies. We applied logistic regressions to identify the determinants of active travel. Our results show that active school travel decreases from city centre to suburban areas, and that route length, perceived traffic and the residential environment have the greatest influence on which mode of travel is selected. Our findings enable us to suggest improvements in school district delineation in suburban areas that would facilitate active travel.
Amtliche Mitteilungen der Technischen Universität Dortmund Nr.8/2022
Creators: name: (:Unkn) Unknown
Publisher: name: Technische Universität Dortmund
Year: 2022
Subjects: subject: 080

description: Ordnung zur Änderung der Zugangsordnung für den gemeinsamen internationalen Masterstudiengang „Advanced Methods in Particle Physics“ (Teilchenphysik) der Fakultät Physik an der Technischen Universität Dortmund vom 22. März 2022
description: Amtliche Mitteilungen der Technischen Universität Dortmund;2022; 8
Complex delay dynamics on railway networks: from universal laws to realistic modelling
Creators: name: Monechi, Bernardo
name: Gravino, Pietro
name: di Clemente, Riccardo
name: Servedio, Vito D. P.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Physics and Society (physics.soc-ph)
subject: FOS: Physical sciences

description: Railways are a key infrastructure for any modern country. The reliability and resilience of this peculiar transportation system may be challenged by different shocks such as disruptions, strikes and adverse weather conditions. These events compromise the correct functioning of the system and trigger the spreading of delays into the railway network on a daily basis. Despite their importance, a general theoretical understanding of the underlying causes of these disruptions is still lacking. In this work, we analyse the Italian and German railway networks by leveraging on the train schedules and actual delay data retrieved during the year 2015. We use {these} data to infer simple statistical laws ruling the emergence of localized delays in different areas of the network and we model the spreading of these delays throughout the network by exploiting a framework inspired by epidemic spreading models. Our model offers a fast and easy tool for the preliminary assessment of the {effectiveness of} traffic handling policies, and of the railway {network} criticalities.
description: 32 pages (with appendix), 28 Figures (with appendix), 2 Tables
Pyrolysis of raw and torrefied biomass – influence of the severity of valorization and density of pellets
Creators: name: Luo, Hao
name: Krochmalny, Krystian
name: Niedzwiecki, Lukasz
name: Baranowski, Marcin
name: Pawlak-Kruczek, Halina
name: Arora, Amit
name: Mościcki, Krzysztof
name: Tiwari, Mayank
Publisher: name: figshare
Year: 2019
Subjects: classificationCode: 400402
subject: Chemical and thermal processes in energy and combustion

description: ISCP2019
Corpuscular slow-roll inflation
Creators: name: Casadio, Roberto
name: Giugno, Andrea
name: Giusti, Andrea
Publisher: name: arXiv
Year: 2017
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: Cosmology and Nongalactic Astrophysics (astro-ph.CO)
subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: We show that a corpuscular description of gravity can lead to an inflationary scenario similar to Starobinsky's model without requiring the introduction of the inflaton field. All relevant properties are determined by the number of gravitons in the cosmological condensate or, equivalently, by their Compton length. In particular, the relation between the Hubble parameter $H$ and its time derivative $\dot H$ required by CMB observations at the end of inflation, as well as the (minimum) initial value of the slow-roll parameter, are naturally obtained from the Compton size of the condensate.
description: 6 pages, 1 figure, minor typos corrected
Scalable Online Convolutional Sparse Coding
Creators: name: Wang, Yaqing
name: Yao, Quanming
name: Kwok, James T.
name: Ni, Lionel M.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Computer Vision and Pattern Recognition (cs.CV)
subject: FOS: Computer and information sciences

description: Convolutional sparse coding (CSC) improves sparse coding by learning a shift-invariant dictionary from the data. However, existing CSC algorithms operate in the batch mode and are expensive, in terms of both space and time, on large datasets. In this paper, we alleviate these problems by using online learning. The key is a reformulation of the CSC objective so that convolution can be handled easily in the frequency domain and much smaller history matrices are needed. We use the alternating direction method of multipliers (ADMM) to solve the resulting optimization problem and the ADMM subproblems have efficient closed-form solutions. Theoretical analysis shows that the learned dictionary converges to a stationary point of the optimization problem. Extensive experiments show that convergence of the proposed method is much faster and its reconstruction performance is also better. Moreover, while existing CSC algorithms can only run on a small number of images, the proposed method can handle at least ten times more images.
Searching for left sneutrino LSP at the LHC
Creators: name: Ghosh, Pradipta
name: Lara, Inaki
name: Lopez-Fogliani, Daniel E.
name: Munoz, Carlos
name: de Austri, Roberto Ruiz
Publisher: name: arXiv
Year: 2017
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: High Energy Physics - Experiment (hep-ex)
subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: We analyze relevant signals expected at the LHC for a left sneutrino as the lightest supersymmetric particle (LSP). The discussion is carried out in the `$μ$ from $ν$' supersymmetric standard model ($μν$SSM), where the presence of $R$-parity breaking couplings involving right-handed neutrinos solves the $μ$ problem and reproduces neutrino data. The sneutrinos are pair produced via a virtual $W$, $Z$ or $γ$ in the $s$ channel. From the prompt decay of a pair of left sneutrinos LSPs of any family, a significant diphoton signal plus missing transverse energy (MET) from neutrinos can be present in the mass range 118-132 GeV, with 13 TeV center-of-mass energy and an integrated luminosity of 100 fb$^{-1}$. In addition, in the case of a pair of tau left sneutrinos LSPs, given the large value of the tau Yukawa coupling diphoton plus leptons and/or multileptons can appear. We find that the number of expected events for the multilepton signal, together with properly adopted search strategies, is sufficient to give a significant evidence for a sneutrino of mass in the range 130-310 GeV, even with the integrated luminosity of 20 fb$^{-1}$. In the case of the signal producing diphoton plus leptons, an integrated luminosity of 100 fb$^{-1}$ is needed to give a significant evidence in the mass range 95-145 GeV. Finally, we discuss briefly the presence of displaced vertices and the associated range of masses.
description: Version published in IJMPA. 54 pages, 8 figures, 14 tables
Additional file 7: of Performance of the quick Sequential (sepsis-related) Organ Failure Assessment score as a prognostic tool in infected patients outside the intensive care unit: a systematic review and meta-analysis
Creators: name: Jae-Uk Song
name: Sin, Cheol
name: Park, Hye
name: Shim, Sung
name: Jonghoo Lee
Publisher: name: figshare
Year: 2018
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Molecular Biology
subject: Biotechnology
subject: 69999 Biological Sciences not elsewhere classified
subject: Science Policy
subject: 111714 Mental Health
subject: FOS: Health sciences
subject: 110309 Infectious Diseases

description: Paired forest plots of sensitivity and specificity of positive qSOFA score in identifying ICU admission in infected patients outside the intensive care unit. (PDF 170 kb)
Halokirschsteiniothelia maritima Boonmee et K. D. Hyde
Creators: name: Tibell, Sanja
name: Tibell, Leif
name: Pang, Ka-Lai
name: Jones, E. B. Gareth
Publisher: name: Zenodo
Year: 2019
Subjects: Biodiversity
Taxonomy
Fungi
Ascomycota
Dothideomycetes
Mytilinidiales
Mytilinidiaceae
Halokirschsteiniothelia
Halokirschsteiniothelia maritima

description: 24. Halokirschsteiniothelia maritima (Linder) Boonmee et K.D. Hyde, in Boonmee, Ko Ko, Chukeatirote, Hyde, Chen, Cai, McKenzie, Jones, Kodsueb et Bahkali, Mycologia 104(3): 705 (2012)
 Substrate and distribution: Marine wood. Bohuslän, Gotland. Also indicated by Eriksson (2014) to occur in Skåne. Additional records: Bohuslän, Mollösund par., Edshultshall, 58°06′58″N, 11°28′05″E, ST 18-32 (UPS). Skaftö par., Fiskebäckskil, Klubban, 58°15′04″N, 11°27′52″E, 27.III 2016, ST16-18 (UPS); Kristineberg, 58°14′59″N, 11°26′49″E, 18. VI 2017, ST 18-83 (UPS). Tjärnö par., Sydkoster, Långvik, 58°52′59″N, 11°00′32″E, marine driftwood, 20. VI 2017, ST 18-97 (UPS).
 Notes: Reported by Eriksson (2014) from Bohuslän (several Santesson collections), and Tibell (2016) from Gotland.
description: Published as part of Tibell, Sanja, Tibell, Leif, Pang, Ka-Lai & Jones, E. B. Gareth, 2020, A conspectus of the filamentous marine fungi of Sweden, pp. 141-153 in Botanica Marina (Warsaw, Poland) (Warsaw, Poland) 63 (2) on page 146, DOI: 10.1515/bot-2018-0114, http://zenodo.org/record/11360145
Amylocarpus encephaloides Curr., Proc. R. Soc. Lond., B. Biol. Sci.
Creators: name: Tibell, Sanja
name: Tibell, Leif
name: Pang, Ka-Lai
name: Jones, E. B. Gareth
Publisher: name: Zenodo
Year: 2019
Subjects: Biodiversity
Taxonomy
Fungi
Ascomycota
Leotiomycetes
Helotiales
Helotiaceae
Amylocarpus
Amylocarpus encephaloides

description: 3. Amylocarpus encephaloides Curr., Proc. R. Soc. Lond., B. Biol. Sci. 9: 119 (1857–1859) (Figure 1)
 Substrate and distribution: Marine wood. Ångermanland, Bohuslän, Medelpad, Västerbotten, Öland.
 Notes: Reported by Henningsson (1974) from the Baltic. Further reports from the Baltic Coast (Eriksson 2014) and also from the Swedish West Coast (Tibell 2016).
description: Published as part of Tibell, Sanja, Tibell, Leif, Pang, Ka-Lai & Jones, E. B. Gareth, 2020, A conspectus of the filamentous marine fungi of Sweden, pp. 141-153 in Botanica Marina (Warsaw, Poland) (Warsaw, Poland) 63 (2) on page 142, DOI: 10.1515/bot-2018-0114, http://zenodo.org/record/11360145