cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Complete mitochondrial genome sequence and phylogenetic analysis of the hybrid flat fish Platichthys stellatus (♀) × Platichthys bicoloratus (♂)
Creators: name: Baek, In-Gug
name: Kim, Yong Hwi
name: Han, Ho-Seop
name: Huynh, Duc Tam
name: Bang, In-Chul
Publisher: name: Taylor & Francis
Year: 2024
Subjects: subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Molecular Biology
subject: Evolutionary Biology
subject: Ecology
subject: Marine Biology
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Virology

description: We report the complete mitochondrial genome of the hybrid flounder Platichthys stellatus (♀) × Platichthys bicoloratus (♂). The mitochondrial genome contained 13 protein-coding genes, 2 ribosomal RNA (rRNA) genes, 22 transfer RNA (tRNA) genes, and 1 control region (D-loop), for a total length of 16,874 bp. The nucleotide composition of the heavy strand was 29.15% C, 26.99% A, 26.14% T, and 17.71% G. A maximum-likelihood phylogenetic analysis showed that the hybrid flat fish was a member of the same clade as P. stellatus (maternal inheritance). Our findings add to the extant data on the subfamily Pleuronecidae and provide insight into their molecular phylogeny and taxonomy.
title: ADCO, Grènetier de Cîteaux : comptes (1497-1504) (11 H 1172), f. 00695
Creators: name: de la Côte-d'Or, Archives départementales
name: Petot, Frédérique
name: Projet CBMA
name: CBMA/CG21/F.PETOT/2019
name: Archives Départementales De La Côte-D'Or
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: LaMOP
subject: Laboratoire de Médiévistique Occidentale de Paris
subject: comptes

description: Grènetier de Cîteaux : comptes (1497-1504), Archives départementales de la Côte-d'Or, (11 H 1172). Numérisation en mode image.
description: Relation: http://www.cbma-project.eu/
description: Bibliographic citation: Grènetier de Cîteaux : comptes (1497-1504), Archives départementales de la Côte-d'Or, (11 H 1172), f. 00695, 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
Additional file 1: Table S1. of De novo transcriptome assembly, annotation and comparison of four ecological and evolutionary model salmonid fish species
Creators: name: Carruthers, Madeleine
name: Yurchenko, Andrey
name: Augley, Julian
name: Adams, Colin
name: Herzyk, Pawel
name: Elmer, Kathryn
Publisher: name: figshare
Year: 2018
Subjects: subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Evolutionary Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: Marine Biology
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Plant Biology

description: NCBI SRA and TSA accessions for raw read data and assemblies (respectively), for all four species. (PDF 58Â kb)
4DIP Framework: A Symbolic Geometric Approach to Solving Differential Systems
Creators: name: curry, jon
Publisher: name: Zenodo
Year: 2025
Subjects: Computational Physics, Symbolic Solvers, Symbolic Computation, High-Precision Computing, Iterative Solver, 4DIP, Applied Mathematics, Numerical Methods, Scientific Computing, Physics Simulation, Engineering Applications

description: Classical numerical solvers, such as Runge-Kutta (RK45) and Backward Differentiation Formulas

(BDF), excel for smooth ordinary differential equations (ODEs) but falter in stiff, chaotic,

or high-dimensional systems due to adaptive step-size control and numerical derivative approximations.

These limitations hinder applications in complex physics, such as plasma dynamics

or tensorial field equations in cosmology. The Four-Dimensional Iterative Prediction (4DIP)

framework offers a transformative alternative, employing a symbolic, geometry-based method

to contract a residual vector between the target solution Fn and an evolving guess Gn. Like a

spring settling into equilibrium, 4DIP iteratively refines solutions without time discretization,

preserving system structure across domains like electromagnetism and relativistic hydrodynamics.

This revised paper addresses prior feedback by enhancing theoretical foundations, expanding

comparisons to state-of-the-art solvers, adding test cases, and improving accessibility for a broad

audience. We provide rigorous convergence analysis, detailed failure mode discussions, and opensource

code to ensure reproducibility, positioning 4DIP as a versatile tool for computational

science.
Reduced models for ferromagnetic thin films with periodic surface roughness
Creators: name: Morini, Massimiliano
name: Slastikov, Valeriy
Publisher: name: arXiv
Year: 2017
Subjects: subject: Mathematical Physics (math-ph)
subject: FOS: Physical sciences

description: We investigate the influence of periodic surface roughness in thin ferromagnetic films on shape anisotropy and magnetization behavior inside the ferromagnet. Starting from the full micromagnetic energy and using methods of homogenization and $Γ$-convergence we derive a two dimensional local reduced model. Investigation of this model provides an insight on the formation mechanism of {\it perpendicular magnetic anisotropy} and uniaxial anisotropy with an {\it arbitrary} preferred direction of magnetization.
Additional file 6 of Comprehensive analysis of complete chloroplast genome and phylogenetic aspects of ten Ficus species
Creators: name: Huang, Yuying
name: Li, Jing
name: Yang, Zerui
name: An, Wenli
name: Xie, Chunzhu
name: Liu, Shanshan
name: Zheng, Xiasheng
Publisher: name: figshare
Year: 2022
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 6: Table S5. Predicted RNA editing sites in eleven Ficus chloroplast genomes by the PREP program.
A Graph Grammar for Modelling RNA Folding
Creators: name: Mamuye, Adane Letta
name: Merelli, Emanuela
name: Tesei, Luca
Publisher: name: arXiv
Year: 2016
Subjects: subject: Formal Languages and Automata Theory (cs.FL)
subject: Biomolecules (q-bio.BM)
subject: FOS: Computer and information sciences
subject: FOS: Biological sciences

description: We propose a new approach for modelling the process of RNA folding as a graph transformation guided by the global value of free energy. Since the folding process evolves towards a configuration in which the free energy is minimal, the global behaviour resembles the one of a self-adaptive system. Each RNA configuration is a graph and the evolution of configurations is constrained by precise rules that can be described by a graph grammar.
description: In Proceedings GaM 2016, arXiv:1612.01053
Additional file 3: Figure S1â S3. of Pregnancy outcomes in women taking probiotics or prebiotics: a systematic review and meta-analysis
Creators: name: Jarde, Alexander
name: Anne-Mary Lewis-Mikhael
name: Moayyedi, Paul
name: Stearns, Jennifer
name: Collins, Stephen
name: Beyene, Joseph
name: McDonald, Sarah
Publisher: name: figshare
Year: 2018
Subjects: subject: Medicine
subject: Cell Biology
subject: Molecular Biology
subject: Pharmacology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Developmental Biology
subject: Computational Biology

description: Additional figures of interest. (DOCX 109 kb)
The complete chloroplast genome of Fuchsia standishii J. Harrison, 1840 (Onagraceae) from Yunnan, China
Creators: name: Li, Siying
name: Wang, Shuang
name: Fan, Min
Publisher: name: Taylor & Francis
Year: 2024
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Molecular Biology
subject: Evolutionary Biology
subject: Environmental Sciences not elsewhere classified
subject: Ecology
subject: Biological Sciences not elsewhere classified
subject: Plant Biology

description: Fuchsia standishii J. Harrison, 1840, a perennial shrub, is renowned for its vividly colored and uniquely shaped blooms, which have an extended flowering season. Commonly cultivated as an ornamental potted plant, it is utilized in traditional Chinese medicine. In this study, we successfully sequenced and assembled the complete chloroplast genome of F. standishii using high-throughput Illumina sequencing technology. The assembled chloroplast genome displays a typical quadripartite structure, with a total length of 156,391 bp. It consists of a pair of inverted repeat regions (IRs), each measuring 25,069 bp, separated by a large single-copy region (LSC) of 87,754 bp and a small single-copy region (SSC) of 18,499 bp. The overall GC content of the genome is 37.60%. The genome includes a total of 129 genes, comprising 84 protein-coding genes, 37 tRNA genes, and eight rRNA genes. Phylogenetic analysis of 17 complete chloroplast genomes revealed that F. standishii forms a monophyletic group with the entire Circaea. This study provides a molecular foundation for future phylogenetic research on Fuchsia.
Beyond-mean-field study of the hyperon impurity effect in hypernuclei with shape coexistence
Creators: name: Wu, X. Y.
name: Mei, H.
name: Yao, J. M.
name: Zhou, Xian-Rong
Publisher: name: arXiv
Year: 2017
Subjects: subject: Nuclear Theory (nucl-th)
subject: FOS: Physical sciences

description: [Background] The hyperon impurity effect in nuclei has been extensively studied in different mean-field models. Recently, there is a controversy about whether the $Λ$ hyperon is more tightly bound in the normal deformed (ND) states than that in the superdeformed (SD) states.[Purpose] This article is aimed to provide a beyond-mean-field study of the low-lying states of hypernuclei with shape coexistence and to shed some light on the controversy.[Method] The models of relativistic mean-field and beyond based on a relativistic point-coupling energy functional are adopted to study the low-lying states of both $^{37}_Λ$Ar and $^{36}$Ar. The wavefunctions of low-lying states are constructed as a superposition of a set of relativistic mean-field states with different values of quadrupole deformation parameter. The projections onto both particle number and angular momentum are considered.[Results] The $Λ$ binding energies in both ND and SD states of $^{37}_Λ$Ar are studied in the case of the $Λ$ hyperon occupying $s, p$, or $d$ state in the spherical limit, respectively. For comparison, four sets of nucleon-hyperon point-coupling interactions are used respectively. Moreover, the spectra of low-lying states in $^{36}$Ar and $^{37}_{Λ_s}$Ar are calculated based on the same nuclear energy density functional. The results indicate that the SD states exist in $^{37}_Λ$Ar for all the four effective interactions. Furthermore, the $Λ_s$ reduces the quadrupole collectivity of ND states to a greater extent than that of SD states. For $^{37}_Λ$Ar, the beyond-mean-field decreases the $Λ_s$ binding energy of the SD state by 0.17 MeV, but it almost has no effect on that of the ND state. [Conclusions] In $^{37}_{Λ_s}$Ar, the $Λ_p$ and $Λ_d$ binding energies of the SD states ...
description: 11 pages, 15 figures, 4 tables, will be published in Phys. Rev. C
Additional file 8 of Comprehensive analysis of complete chloroplast genome and phylogenetic aspects of ten Ficus species
Creators: name: Huang, Yuying
name: Li, Jing
name: Yang, Zerui
name: An, Wenli
name: Xie, Chunzhu
name: Liu, Shanshan
name: Zheng, Xiasheng
Publisher: name: figshare
Year: 2022
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 8: Table S7. Universal primers for amplifying four regions between the IR regions and the LSC/SSC region.
Cost-effectiveness of selective internal radiation therapy with Y-90 resin microspheres for intermediate- and advanced-stage hepatocellular carcinoma in Brazil
Creators: name: Agirrezabal, Ion
name: Grillo, Luiz Sérgio Pereira
name: Nasser, Felipe
name: Brennan, Victoria K.
name: Bugano, Diogo
name: Galastri, Francisco Leonardo
name: de Azeredo- da-Silva, André Luis F.
name: Shergill, Suki
name: da Motta-Leal-Filho, Joaquim Maurício
Publisher: name: Taylor & Francis
Year: 2023
Subjects: subject: Medicine
subject: Biotechnology
subject: Ecology
subject: FOS: Biological sciences
subject: Biological Sciences not elsewhere classified
subject: Science Policy
subject: Infectious Diseases
subject: FOS: Health sciences

description: Hepatocellular carcinoma (HCC) is a severe condition with poor prognosis that places a significant burden on patients, caregivers, and healthcare systems. Selective internal radiation therapy (SIRT) is a treatment available to patients with HCC which addresses some of the limitations of alternative treatment options. A cost-effectiveness analysis was undertaken into the use of SIRT using Y-90 resin microspheres for the treatment of unresectable intermediate- and late-stage HCC in Brazil. A partitioned-survival model was developed, including a tunnel state for patients downstaged to receive treatments with curative intent. Sorafenib was the selected comparator, a common systemic treatment in Brazil and for which comparative evidence exists. Clinical data were extracted from published sources of pivotal trials, and effectiveness was measured in quality-adjusted life-years (QALYs) and life-years (LYs). The analysis was conducted from the Brazilian private payer perspective and a lifetime horizon was implemented. Comprehensive sensitivity analyses were conducted. LYs and QALYs were higher for SIRT with Y-90 resin microspheres versus sorafenib (0.27 and 0.20 incremental LYs and QALYs, respectively) and costs were slightly higher for SIRT (R$15,864). The base case incremental cost-effectiveness ratio (ICER) was R$77,602 per QALY. The ICER was mostly influenced by parameters defining the sorafenib overall survival curve and SIRT had a 73% probability of being cost-effective at a willingness-to-pay threshold of R$135,761 per QALY (3-times the per-capita gross domestic product in Brazil). Overall, sensitivity analyses confirmed the robustness of the results indicating that SIRT with Y-90 resin microspheres is cost-effective compared with sorafenib. A rapidly evolving treatment landscape in Brazil and worldwide, and the lack of local data for some variables were the main limitations. SIRT with Y-90 resin microspheres is a cost-effective option compared with sorafenib in Brazil.
Numerical non-LTE 3D radiative transfer using a multigrid method
Creators: name: Bjørgen, Johan P.
name: Leenaarts, Jorrit
Publisher: name: arXiv
Year: 2017
Subjects: subject: Solar and Stellar Astrophysics (astro-ph.SR)
subject: Instrumentation and Methods for Astrophysics (astro-ph.IM)
subject: FOS: Physical sciences

description: 3D non-LTE radiative transfer problems are computationally demanding, and this sets limits on the size of the problems that can be solved. So far Multilevel Accelerated Lambda Iteration (MALI) has been to the method of choice to perform high-resolution computations in multidimensional problems. The disadvantage of MALI is that its computing time scales as $\mathcal{O}(n^2)$, with $n$ the number of grid points. When the grid gets finer, the computational cost increases quadratically. We aim to develop a 3D non-LTE radiative transfer code that is more efficient than MALI. We implement a non-linear multigrid, fast approximation storage scheme, into the existing Multi3D radiative transfer code. We verify our multigrid implementation by comparing with MALI computations. We show that multigrid can be employed in realistic problems with snapshots from 3D radiative-MHD simulations as input atmospheres. With multigrid, we obtain a factor 3.3-4.5 speedup compared to MALI. With full-multigrid the speed-up increases to a factor 6. The speedup is expected to increase for input atmospheres with more grid points and finer grid spacing. Solving 3D non-LTE radiative transfer problems using non-linear multigrid methods can be applied to realistic atmospheres with a substantial speed-up.
description: Accepted for publication by A&A
Additional file 9: Figure S9. of Unique, dual-indexed sequencing adapters with UMIs effectively eliminate index cross-talk and significantly improve sensitivity of massively parallel sequencing
Creators: name: MacConaill, Laura
name: Burns, Robert
name: Anwesha Nag
name: Coleman, Haley
name: Slevin, Michael
name: Giorda, Kristina
name: Light, Madelyn
name: Lai, Kevin
name: Jarosz, Mirna
name: McNeill, Matthew
name: Ducar, Matthew
name: Meyerson, Matthew
name: Thorner, Aaron
Publisher: name: figshare
Year: 2018
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Molecular Biology
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology

description: Comparing the level of cross-talk using combinatorial adapters between the Illumina HiSeq 2500 and Illumina HiSeq 3000/4000 platforms. The 96-well plate layout represents the adapter plate. Two samples underwent library construction using IDT-synthesized TS-96 adapters (green). Libraries were pooled, hybrid captured using a whole exome capture bait set, and then sequenced on a single lane of an (a) Illumina HiSeq2500 flow cell or (b) Illumina HiSeq 3000/4000 patterned flow cell. Numbers in each well represent the number of fragments that passed standard Illumina filters and demultiplexed using only perfect sequence matches on all IDT TS-96 indices. (PDF 210 kb)
Macronutrient accumulation in wheat crop (Triticum aestivum L.) with Azospirillum brasilense associated with nitrogen doses and sources
Creators: name: Galindo, Fernando Shintate
name: Filho, Marcelo Carvalho Minhoto Teixeira
name: Buzetti, Salatiér
name: Santini, José Mateus Kondo
name: Boleta, Eduardo Henrique Marcandalli
name: Rodrigues, Willian Lima
Publisher: name: Taylor & Francis
Year: 2020
Subjects: subject: Biochemistry
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Pharmacology
subject: Environmental Sciences not elsewhere classified
subject: Chemical Sciences not elsewhere classified
subject: Ecology
subject: Sociology
subject: FOS: Sociology
subject: Biological Sciences not elsewhere classified
subject: Plant Biology
subject: Virology
subject: Computational Biology

description: New studies are needed to optimize the nitrogen (N) amount that can be applied to utilize the Azospirillum brasilense benefits. In addition, information regarding the interaction between the urease inhibitor and biological nitrogen fixation (BNF) and how they affect the macronutrients accumulation are also needed. We evaluate the effect of N sources and doses associated with A. brasilense regarding the macronutrients accumulation in straw and grains and wheat grain yield in tropical conditions. A randomized block experimental design was used with four replications in a 2 × 5 × 2 factorial arrangement as follows: two N sources (urea and urea with urease enzyme inhibitor NBPT; five N doses (0, 50, 100, 150, and 200 kg ha−1) applied in topdressing; with and without A. brasilense inoculation. We found that an increase in N doses positively influenced the accumulation of macronutrients in straw and grains and the wheat grain yield. N sources have similar effects. Inoculation with A. brasilense increased accumulation of Mg and S in straw and P, Ca, and Mg in grains, regardless of the N dose. The inoculation with A. brasilense associated with 140 kg ha−1 of N increased wheat grain yield. The inoculation can contribute in a more sustainable way to wheat nutrition and optimizing N fertilization.
Autobiographical thinking: processes of thinking about personal past and future events
Creators: name: Cordonnier, Aline
Publisher: name: Macquarie University
Year: 2022
Subjects: Other education not elsewhere classified

description: Autobiographical thinking is the capacity to remember past events, but also to simulate, imagine and plan hypothetical events that could have happened in one's past or that could occur in one's future. In this thesis, I examine a broad range of autobiographical thinking processes in both theoretical and empirical ways. In my theoretical chapter, I present an integrated cognitive framework for understanding processes of autobiographical thinking. This cognitive framework maps the domain of what I term "autobiographical thinking" and sets the scene for the following empirical chapters. Then, across four empirical papers, I investigate many ways of thinking about personal past and future events. In my experiments, I asked participants to remember personal memories, but also to simulate how else they could have happened. I asked them to imagine and plan future events, and to think about alternative versions of how they could occur. I investigate these various processes of thinking autobiographically, their raw materials and their products across four main levels of analyses. The first level of analysis examines the content of autobiographical thinking, and more precisely the role of scripts in past and future planning. The second level of analysis examines the phenomenology of autobiographical events. The third level of analysis examines the linguistic style used to describe narratives of autobiographical events. And the fourth level of analysis examines the perceived plausibility of past and future hypothetical events. Overall, I aim to acquire a more comprehensive understanding of how autobiographical events are constructed, perceived, and described. I also consider to what extent the different autobiographical processes differ. My research offers new theory, methods, and data to advance the discussion of autobiographical past and future thinking.
Characterization of the complete chloroplast genome sequence of Schisandra propinqua subsp. sinensis (Oliv.) R.M.K.Saunders 1997 (Schisandraceae)
Creators: name: Zhang, Yu
name: Zhu, Junqiao
name: Xia, Pengguo
name: Xun, Lulu
Publisher: name: Taylor & Francis
Year: 2024
Subjects: subject: Biophysics
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Molecular Biology
subject: Evolutionary Biology
subject: Environmental Sciences not elsewhere classified
subject: Ecology
subject: Biological Sciences not elsewhere classified
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: Virology

description: Schisandra propinqua subsp. sinensis (Oliv.) R.M.K. Saunders 1997, a woody vine plant esteemed for its medicinal properties, has garnered attention in botanical research. In this study, we elucidated the complete chloroplast genome sequence of S. propinqua. The genome spans 145,562 bp and comprises a large single-copy (LSC) region of 94,164 bp, a small single-copy region of 18,294 bp (SSC), and a pair of inverted repeats (IR) of 16,552 bp. Notably, S. propinqua exhibits an overall GC content of 36.2%. Annotation revealed a total of 116 genes, encompassing 81 protein-coding genes, 27 transfer RNA (tRNA) genes, and 8 ribosomal RNA (rRNA) genes. Phylogenetic analysis unveiled a close relationship among Schisandraceae, indicating the evolutionary proximity. This comprehensive genomic dataset provides valuable insights into the genetic makeup and evolutionary dynamics within the Schisandra genus.
Spin-valley half-metal as a prospective material for spin-valley-tronics
Creators: name: Rozhkov, A. V.
name: Rakhmanov, A. L.
name: Sboychakov, A. O.
name: Kugel, K. I.
name: Nori, F.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: Half-metallicity (full spin polarization of the Fermi surface) usually occurs in strongly correlated electron systems. We demonstrate that doping a spin-density wave insulator in the weak-coupling regime may also stabilize half-metallic states. The undoped spin-density wave is formed by four nested bands [i.e., each band is characterized by charge (electron/hole) and spin (up/down) labels]. Of these four bands only two accumulate the doped carriers, forming a half-metallic two-valley Fermi surface. Depending on parameters, the spin polarizations of the electron-like and hole-like valleys may be (i) parallel or (ii) antiparallel. The Fermi surface of (i) is fully spin-polarized (similar to usual half-metals). Case (ii), referred to as "a spin-valley half-metal", corresponds to complete polarization with respect to the spin-valley operator. The properties of these states are discussed.
description: 6 pages, 2 eps figures
Towards a Step Semantics for Story-Driven Modelling
Creators: name: Kulcsár, Géza
name: Anjorin, Anthony
Publisher: name: arXiv
Year: 2016
Subjects: subject: Software Engineering (cs.SE)
subject: FOS: Computer and information sciences

description: Graph Transformation (GraTra) provides a formal, declarative means of specifying model transformation. In practice, GraTra rule applications are often programmed via an additional language with which the order of rule applications can be suitably controlled. Story-Driven Modelling (SDM) is a dialect of programmed GraTra, originally developed as part of the Fujaba CASE tool suite. Using an intuitive, UML-inspired visual syntax, SDM provides usual imperative control flow constructs such as sequences, conditionals and loops that are fairly simple, but whose interaction with individual GraTra rules is nonetheless non-trivial. In this paper, we present the first results of our ongoing work towards providing a formal step semantics for SDM, which focuses on the execution of an SDM specification.
description: In Proceedings GaM 2016, arXiv:1612.01053
Additional file 3 of Comprehensive analysis of complete chloroplast genome and phylogenetic aspects of ten Ficus species
Creators: name: Huang, Yuying
name: Li, Jing
name: Yang, Zerui
name: An, Wenli
name: Xie, Chunzhu
name: Liu, Shanshan
name: Zheng, Xiasheng
Publisher: name: figshare
Year: 2022
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 3: Table S2. Gene contents in the Ficus species chloroplast genome.
Additional file 2: Tables S1â S8. of Pregnancy outcomes in women taking probiotics or prebiotics: a systematic review and meta-analysis
Creators: name: Jarde, Alexander
name: Anne-Mary Lewis-Mikhael
name: Moayyedi, Paul
name: Stearns, Jennifer
name: Collins, Stephen
name: Beyene, Joseph
name: McDonald, Sarah
Publisher: name: figshare
Year: 2018
Subjects: subject: Space Science
subject: Medicine
subject: Molecular Biology
subject: Pharmacology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Developmental Biology
subject: Computational Biology

description: Tables with additional information and details. (DOCX 43 kb)
Incremental View Maintenance for Deductive Graph Databases Using Generalized Discrimination Networks
Creators: name: Beyhl, Thomas
name: Giese, Holger
Publisher: name: arXiv
Year: 2016
Subjects: subject: Databases (cs.DB)
subject: FOS: Computer and information sciences

description: Nowadays, graph databases are employed when relationships between entities are in the scope of database queries to avoid performance-critical join operations of relational databases. Graph queries are used to query and modify graphs stored in graph databases. Graph queries employ graph pattern matching that is NP-complete for subgraph isomorphism. Graph database views can be employed that keep ready answers in terms of precalculated graph pattern matches for often stated and complex graph queries to increase query performance. However, such graph database views must be kept consistent with the graphs stored in the graph database. In this paper, we describe how to use incremental graph pattern matching as technique for maintaining graph database views. We present an incremental maintenance algorithm for graph database views, which works for imperatively and declaratively specified graph queries. The evaluation shows that our maintenance algorithm scales when the number of nodes and edges stored in the graph database increases. Furthermore, our evaluation shows that our approach can outperform existing approaches for the incremental maintenance of graph query results.
description: In Proceedings GaM 2016, arXiv:1612.01053
Involvement of small molecules in the interaction between Pseudomonas aeruginosa and Scedosporium aurantiacum
Creators: name: Pethani, Bhavin Popatlal
Publisher: name: Macquarie University
Year: 2022
Subjects: Other education not elsewhere classified

description: Pathogenic bacteria and filamentous fungi frequently coexist in airways of individuals with cystic fibrosis (CF) and increase morbidity and mortality rates. In this thesis, interactions were studied between the opportunistic bacterium Pseudomonas aeruginosa, and emerging fungal pathogen Scedosporium aurantiacum, which are prominent causes of CF infection in Australia. Co-cultivation of P. aeruginosa and S. aurantiacum on lung mimicking agarmedium revealed inhibitory effects of P. aeruginosa on fungal growth. The nature of interaction was explored using heat killed cells, cell lysate and culture supernatant of P. aeruginosa, indicating the necessity of live P. aeruginosa cells and/or intra and extracellular small molecules to inhibit the growth of S. aurantiacum. To identify molecular basis of interaction, small molecules were extracted using various solvents from cell lysates and culture supernatants of selected strains of P. aeruginosa and S. aurantiacum. The inhibitory activity of solvent fractions of P. aeruginosa against S. aurantiacum indicated presence of small bioactive molecules produced by the bacterium. The solvent fractions were partially characterised and fractionated using ultraviolet-visible spectroscopy and high performance liquid chromatography. The work contributes to characterisation of microbial interactions that may affect the lungs of people with CF, and the search for effective management of the disease.
Preliminary studies of creation of gold nanoparticles on titanium surface towards biomedical applications
Creators: name: Csarnovics, I.
name: Hajd, P.
name: Biri, S.
name: Hegedűs, Cs.
name: Kokényesi, S.
name: Rácz, R.
name: Csik, A.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: This paper is devoted to present the results of creation of gold nanoparticles on titanium surface. We focused on the problem how to create gold nanoparticles on the titanium surface with defined particle size and distribution, which could be interesting for several applications (e.g. providing well-defined substrates for biomedical research, etc.). To do that the sample is affected by the complex physical rout of gold nanoparticles formation: by gold ion implantation, thin Au layer deposition and thermal annealing. The effect of the technology, influence on the surface structure and its parameters were investigated by the X-ray diffraction, Scanning Electron and Atomic Force Microscopy, as well as by Secondary Neutral Mass Spectrometry methods.
Additional file 5 of Comprehensive analysis of complete chloroplast genome and phylogenetic aspects of ten Ficus species
Creators: name: Huang, Yuying
name: Li, Jing
name: Yang, Zerui
name: An, Wenli
name: Xie, Chunzhu
name: Liu, Shanshan
name: Zheng, Xiasheng
Publisher: name: figshare
Year: 2022
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 5: Table S4. Codon usage of the eleven Ficus chloroplast genomes.
Semiclassical theory of synchronization-assisted cooling
Creators: name: Jäger, Simon B.
name: Xu, Minghui
name: Schütz, Stefan
name: Holland, Murray J.
name: Morigi, Giovanna
Publisher: name: arXiv
Year: 2017
Subjects: subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: We analyse the dynamics leading to radiative cooling of an atomic ensemble confined inside an optical cavity when the atomic dipolar transitions are incoherently pumped and can synchronize. Our study is performed in the semiclassical regime and assumes that cavity decay is the largest rate in the system dynamics. We identify three regimes characterising the cooling. At first hot atoms are individually cooled by the cavity friction forces. After this stage, the atoms' center-of-mass motion is further cooled by the coupling to the internal degrees of freedom while the dipoles synchronize. In the latest stage dipole-dipole correlations are stationary and the center-of-mass motion is determined by the interplay between friction and dispersive forces due to the coupling with the collective dipole. We analyse this asymptotic regime by means of a mean-field model and show that the width of the momentum distribution can be of the order of the photon recoil. Furthermore, the internal excitations oscillate spatially with the cavity standing wave forming an antiferromagnetic-like order.
description: 16 pages, 14 figures
Ai posti di comando. Individui, organizzazioni e reti nel capitalismo finanziario italiano, edited by Joselle Dagnes
Creators: name: Bocconcelli, Roberta
Publisher: name: Cambio. Rivista sulle Trasformazioni Sociali
Year: 2019

description: Book review
description: Cambio. Rivista sulle Trasformazioni Sociali, Vol 9 No 17 (2019): Political Solitude
Additional file 1: of The antibiotic checklist: an observational study of the discrepancy between reported and actually performed checklist items
Creators: name: Daalen, Frederike Van
name: Hulscher, Marlies
name: Minderhoud, Cas
name: Prins, Jan
name: Geerlings, Suzanne
Publisher: name: figshare
Year: 2018
Subjects: 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: Developmental Biology
subject: Science Policy

description: The antibiotic checklist. (PDF 207Â kb)
Universal Scaling Laws in Metro Area Election Results
Creators: name: Bokányi, Eszter
name: Szállási, Zoltán
name: Vattay, Gábor
Publisher: name: arXiv
Year: 2017
Subjects: subject: Physics and Society (physics.soc-ph)
subject: FOS: Physical sciences

description: We explain the anomaly of election results between large cities and rural areas in terms of urban scaling in the 1948-2016 US elections and in the 2016 EU referendum of the UK. The scaling curves are all universal and depend on a single parameter only, and one of the parties always shows superlinear scaling and drives the process, while the sublinear exponent of the other party is merely the consequence of probability conservation. Based on the recently developed model of urban scaling, we give a microscopic model of voter behavior in which we replace diversity characterizing humans in creative aspects with social diversity and tolerance. The model can also predict new political developments such as the fragmentation of the left and 'the immigration paradox'.
Cost-effectiveness of selective internal radiation therapy with Y-90 resin microspheres for intermediate- and advanced-stage hepatocellular carcinoma in Brazil
Creators: name: Agirrezabal, Ion
name: Grillo, Luiz Sérgio Pereira
name: Nasser, Felipe
name: Brennan, Victoria K
name: Bugano, Diogo
name: Galastri, Francisco Leonardo
name: de Azeredo-da-Silva, André Luis F
name: Shergill, Suki
name: da Motta-Leal-Filho, Joaquim Maurício
Publisher: name: Taylor & Francis
Year: 2023
Subjects: subject: Medicine
subject: Biotechnology
subject: Ecology
subject: FOS: Biological sciences
subject: Biological Sciences not elsewhere classified
subject: Science Policy
subject: Infectious Diseases
subject: FOS: Health sciences

description: Aims Hepatocellular carcinoma (HCC) is a severe condition with poor prognosis that places a significant burden on patients, caregivers, and healthcare systems. Selective internal radiation therapy (SIRT) is a treatment available to patients with HCC which addresses some of the limitations of alternative treatment options. A cost-effectiveness analysis was undertaken into the use of SIRT using Y-90 resin microspheres for the treatment of unresectable, intermediate- and late-stage HCC in Brazil. Materials and methods A partitioned-survival model was developed, including a tunnel state for patients downstaged to receive treatments with curative intent. Sorafenib was the selected comparator, a common systemic treatment in Brazil and for which comparative evidence exists. Clinical data were extracted from published sources of pivotal trials, and effectiveness was measured in quality-adjusted life-years (QALYs) and life-years (LYs). The analysis was conducted from the Brazilian private payer perspective and a lifetime horizon was implemented. Comprehensive sensitivity analyses were conducted. Results LYs and QALYs were higher for SIRT with Y-90 resin microspheres versus sorafenib (0.27 and 0.20 incremental LYs and QALYs, respectively) and costs were slightly higher for SIRT (R$15,864). The base case incremental cost-effectiveness ratio (ICER) was R$77,602 per QALY. The ICER was mostly influenced by parameters defining the sorafenib overall survival curve and SIRT had a 73% probability of being cost-effective at a willingness-to-pay threshold of R$135,761 per QALY (three times the per-capita gross domestic product in Brazil). Overall, sensitivity analyses confirmed the robustness of the results indicating that SIRT with Y-90 resin microspheres is cost-effective compared with sorafenib. Limitations A rapidly evolving treatment landscape in Brazil and worldwide, and the lack of local data for some variables were the main limitations. Conclusions SIRT with Y-90 resin microspheres is a cost-effective option compared with sorafenib in Brazil.
Polytypism in the ground state structure of the Lennard-Jonesium
Creators: name: Pártay, Lívia B.
name: Ortner, Christoph
name: Bartók, Albert P.
name: Pickard, Chris J.
name: Csányi, Gábor
Publisher: name: arXiv
Year: 2017
Subjects: subject: Materials Science (cond-mat.mtrl-sci)
subject: Chemical Physics (physics.chem-ph)
subject: FOS: Physical sciences

description: We present a systematic study of the stability of nineteen different periodic structures using the finite range Lennard-Jones potential model discussing the effects of pressure, potential truncation, cutoff distance and Lennard-Jones exponents. The structures considered are the hexagonal close packed (hcp), face centred cubic (fcc) and seventeen other polytype stacking sequences, such as dhcp and $9R$. We found that at certain pressure and cutoff distance values, neither fcc nor hcp is the ground state structure as previously documented, but different polytypic sequences. This behaviour shows a strong dependence on the way the tail of the potential is truncated.
Ai posti di comando. Individui, organizzazioni e reti nel capitalismo finanziario italiano, edited by Joselle Dagnes
Creators: name: Betti, Marco
Publisher: name: Cambio. Rivista sulle Trasformazioni Sociali
Year: 2019

description: Book review
description: Cambio. Rivista sulle Trasformazioni Sociali, Vol 9 No 17 (2019): Political Solitude
Additional file 7 of Comprehensive analysis of complete chloroplast genome and phylogenetic aspects of ten Ficus species
Creators: name: Huang, Yuying
name: Li, Jing
name: Yang, Zerui
name: An, Wenli
name: Xie, Chunzhu
name: Liu, Shanshan
name: Zheng, Xiasheng
Publisher: name: figshare
Year: 2022
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 7: Table S6. Quality control of the Illumina sequencing of chloroplast genome of Ficus species.
Money Talks. Vent’anni di studi sul denaro sulla scia di Viviana Zelizer
Creators: name: Moiso, Valentina
Publisher: name: Cambio. Rivista sulle Trasformazioni Sociali
Year: 2019

description: Una doppia recensione, di Viviana A. Zelizer, The social meaning of money e di Nina Bandeli, Frederick F. Wherry, Viviana A. Zelizer, Money talks. Explaining how money really works
description: Cambio. Rivista sulle Trasformazioni Sociali, Vol 9 No 17 (2019): Political Solitude
Cost-effectiveness of tezepelumab in Canada for severe asthma
Creators: name: Habash, Mara
name: Guiang, Hannah
name: Mayers, Irvin
name: Quinton, Anna
name: Vuong, Vivian
name: Dineen, Aidan
name: Singh, Sumeet
name: Gibson, Danny
name: Turner, Adrian P.
Publisher: name: Taylor & Francis
Year: 2023
Subjects: subject: Medicine
subject: Pharmacology
subject: Ecology
subject: FOS: Biological sciences
subject: Sociology
subject: FOS: Sociology
subject: Biological Sciences not elsewhere classified
subject: Marine Biology
subject: Science Policy

description: To assess the cost-effectiveness of tezepelumab as add-on maintenance therapy compared with standard of care (SoC) for the treatment of patients with severe asthma in Canada. A cost utility analysis was conducted using a Markov cohort model with five health states (‘controlled asthma’, ‘uncontrolled asthma’, ‘previously controlled asthma with exacerbation’, ‘previously uncontrolled asthma with exacerbation’, and ‘death’). Tezepelumab plus SoC was compared to SoC (high dose inhaled corticosteroids plus long-acting beta agonist) using efficacy estimates derived from the NAVIGATOR (NCT03347279) and SOURCE (NCT03406078) trials. The model included the costs of therapy, administration, resource use for disease management and adverse events. Utility estimates were calculated using a mixed effects regression analysis of the NAVIGATOR and SOURCE trials. A Canadian public payer perspective was used with a 50-year time horizon, a 1.5% annual discount rate, and the base case analysis was conducted probabilistically. A key scenario analysis assessed the cost-effectiveness of tezepelumab compared with currently reimbursed biologics informed by an indirect treatment comparison. The base case analysis suggested that tezepelumab plus SoC was associated with a quality-adjusted life-year (QALY) gain of 1.077 compared with SoC alone at an incremental cost of $207,101 (2022 Canadian dollars), resulting in an incremental cost-utility ratio of $192,357/QALY. The key scenario analysis demonstrated that tezepelumab was dominant against all currently reimbursed biologics, with higher incremental QALYs (ranging from 0.062 to 0.407) and lower incremental costs (ranging from -$6,878 to -$1,974). Additionally, when compared against currently reimbursed biologics in Canada, tezepelumab had the highest probability of being cost-effective across all willingness-to-pay (WTP) thresholds. Tezepelumab provided additional life years and QALYs at additional cost compared with SoC in Canada. In addition, tezepelumab dominated (i.e., more effective, less costly) the other currently reimbursed biologics.
Fiducia Valore Networking di Manola Mazzotta, Gianluca Spatafora
Creators: name: Benvenga, Luca
Publisher: name: Cambio. Rivista sulle Trasformazioni Sociali
Year: 2019

description: Standard book review
description: Cambio. Rivista sulle Trasformazioni Sociali, Vol 9 No 17 (2019): Political Solitude
Environmental factors limiting fertilisation and larval success in corals
Creators: name: Woods, Rachael Maree
Publisher: name: Macquarie University
Year: 2022
Subjects: Other education not elsewhere classified

description: Early life history stages of corals, including fertilisation and larval stages, are susceptible to changes in the chemical and physical properties of seawater, which can severely diminish pre-settlement success. Understanding these limiting factors is therefore important for understanding and predicting population establishment and persistence in novel or changing environments. A review of the literature identified numerous, often-overlapping properties of seawater that have the potential to impact fertilisation and larval survivorship, including salinity, temperature, pH, suspended sediment, nutrients, and heavy metals. Using published experimental data, this study aimed to quantify the influence of seawater properties on fertilisation and larval survivorship probabilities. I found that fertilisation success was most impacted by salinity, copper, phosphorous and sediment, and that larval survivorship was most affected by copper, lead and temperature. I evaluated success through both fertilisation and larval survivorship in order to identify the joint probability of survival in seawater with different chemical and physical properties. This combined model would be suitable for identifying locations that are environmentally compatible with coral larval survival and growth both presently and under future water quality scenarios. This model could therefore be used as a monitoring tool for assessing the potential for the early development of corals as well as recommending targets for water quality in coastal waterways.
Additional file 1 of Comprehensive analysis of complete chloroplast genome and phylogenetic aspects of ten Ficus species
Creators: name: Huang, Yuying
name: Li, Jing
name: Yang, Zerui
name: An, Wenli
name: Xie, Chunzhu
name: Liu, Shanshan
name: Zheng, Xiasheng
Publisher: name: figshare
Year: 2022
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 1: Figure S1. Sequence identity plot comparison of the eleven CP genome of the ten Ficus species using mVISTA.
Additional file 8: Figure S8. of Unique, dual-indexed sequencing adapters with UMIs effectively eliminate index cross-talk and significantly improve sensitivity of massively parallel sequencing
Creators: name: MacConaill, Laura
name: Burns, Robert
name: Anwesha Nag
name: Coleman, Haley
name: Slevin, Michael
name: Giorda, Kristina
name: Light, Madelyn
name: Lai, Kevin
name: Jarosz, Mirna
name: McNeill, Matthew
name: Ducar, Matthew
name: Meyerson, Matthew
name: Thorner, Aaron
Publisher: name: figshare
Year: 2018
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Molecular Biology
subject: Evolutionary Biology
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: Science Policy

description: Adapter plate layout for multiplexing experiments. (PDF 829 kb)