cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
The impact of long-distance mutations on the Ω-loop conformation in TEM type β-lactamases
Creators: name: Shcherbinin, Dmitrii
name: Veselovsky, Alexander
name: Rubtsova, Maya
name: Grigorenko, Vitaly
name: Egorov, Alexey
Publisher: name: Taylor & Francis
Year: 2019
Subjects: subject: Biophysics
subject: Biochemistry
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Molecular Biology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: 60506 Virology

description: β-lactamases are hydrolytic enzymes primarily responsible for occurrence and abundance of bacteria resistant to β-lactam antibiotics. TEM type β-lactamases are formed by the parent enzyme TEM-1 and more than two hundred of its mutants. Positions for the known amino acid substitutions cover ∼30% of TEM type enzyme's sequence. These substitutions are divided into the key mutations that lead to changes in catalytic properties of β-lactamases, and the secondary ones, which role is poorly understood. In this study, Residue Interaction Networks were constructed from molecular dynamic trajectories of β-lactamase TEM-1 and its variants with two key substitutions, G238S and E240K, and their combinations with secondary ones (M182T and Q39K). Particular attention was paid to a detailed analysis of the interactions that affect conformation and mobility of the Ω-loop, representing a part of the β-lactamase active site. It was shown that key mutations weakened the stability of contact inside the Ω-loop thus increasing its mobility. Combination of three amino acid substitutions, including the 182 residue, leads to the release of R65 promoting its new contacts with N175 and D176. As a result, Ω-loop is fixed on the protein globule. The second distal mutation Q39K prevents changes in spatial position of R65, which lead to the weakening of the effect of M182T substitution and the recovery of the Ω-loop mobility. Thus, the distal secondary mutations are directed for recovering the mobility of enzyme disturbed by the key mutations responsible for expansion of substrate specificity. AbbreviationsESBLextended spectrum beta-lactamasesIRinhibitor resistant beta-lactamasesMDmolecular dynamicsRINresidue interaction networksRMSDroot mean square deviationRMSFroot mean square fluctuations. extended spectrum beta-lactamases inhibitor resistant beta-lactamases molecular dynamics residue interaction networks root mean square deviation root mean square fluctuations. Communicated by Ramaswamy H. Sarma
Noncommuting conserved quantities in quantum many-body thermalization
Creators: name: Halpern, Nicole Yunger
name: Beverland, Michael E.
name: Kalev, Amir
Publisher: name: arXiv
Year: 2019
Subjects: subject: Quantum Physics (quant-ph)
subject: Quantum Gases (cond-mat.quant-gas)
subject: Statistical Mechanics (cond-mat.stat-mech)
subject: FOS: Physical sciences

description: In statistical mechanics, a small system exchanges conserved quantities---heat, particles, electric charge, etc.---with a bath. The small system thermalizes to the canonical ensemble, or the grand canonical ensemble, etc., depending on the conserved quantities. The conserved quantities are represented by operators usually assumed to commute with each other. This assumption was removed within quantum-information-theoretic (QI-theoretic) thermodynamics recently. The small system's long-time state was dubbed ``the non-Abelian thermal state (NATS).'' We propose an experimental protocol for observing a system thermalize to the NATS. We illustrate with a chain of spins, a subset of which form the system of interest. The conserved quantities manifest as spin components. Heisenberg interactions push the conserved quantities between the system and the effective bath, the rest of the chain. We predict long-time expectation values, extending the NATS theory from abstract idealization to finite systems that thermalize with finite couplings for finite times. Numerical simulations support the analytics: The system thermalizes to the NATS, rather than to the canonical prediction. Our proposal can be implemented with ultracold atoms, nitrogen-vacancy centers, trapped ions, quantum dots, and perhaps nuclear magnetic resonance. This work introduces noncommuting conserved quantities from QI-theoretic thermodynamics into quantum many-body physics: atomic, molecular, and optical physics and condensed matter.
description: 6 pages. Published version
Gelis cinctus
Creators: name: Kolarov, J.
Publisher: name: Zenodo
Year: 2008
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hymenoptera
Ichneumonidae
Gelis
Gelis cinctus

description: Gelis cinctus (LINNAEUS 1758)
 Ichneumon cinctus LINNAEUS 1758. Syst. naturae … 10 (1): 566.
 Hemiteles bicolorinus: SCHLETTERER 1894: 17, May.
D i s t r i b u t i o n: Palearctic region, New Zealand, introduced into Australia-Tasmania.
description: Published as part of Kolarov, J., 2008, A Catalogue of the [former] Yugoslavian Ichneumonidae (Hymenoptera, Insecta), pp. 1585-1739 in Linzer biologische Beiträge 40 (2) on page 1630, DOI: 10.5281/zenodo.5431642
Measuring the Value and Impact of the Europe PMC Repository
Creators: name: Anoushka Davé
name: Seth, Vivek
name: Pottinger, Emma
name: Rosenberg, Cristina
name: Potau, Xavier
name: Varnai, Peter
Publisher: name: Wellcome Trust
Year: 2019
Subjects: subject: Science Policy
subject: 160511 Research, Science and Technology Policy
subject: FOS: Political science

description: The Europe PMC Funder Committee commission an independent analysis of the repository by the consultancy Technopolis. This is the final report from the study which measures the value and impact of Europe PMC. The authors conducted surveys and interviews to compile quantitative and qualitative data for calculating a variety of economic values. This report describes their methodology as well as the results from their analysis.
Tunable coupling and isolation of single electrons in silicon metal-oxide-semiconductor quantum dots
Creators: name: Eenink, H. G. J.
name: Petit, L.
name: Lawrie, W. I. L.
name: Clarke, J. S.
name: Vandersypen, L. M. K.
name: Veldhorst, M.
Publisher: name: arXiv
Year: 2019
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: Extremely long coherence times, excellent single-qubit gate fidelities and two-qubit logic have been demonstrated with silicon metal-oxide-semiconductor spin qubits, making it one of the leading platforms for quantum information processing. Despite this, a long-standing challenge in this system has been the demonstration of tunable tunnel coupling between single electrons. Here we overcome this hurdle with gate-defined quantum dots and show couplings that can be tuned on and off for quantum operations. We use charge sensing to discriminate between the (2,0) and (1,1) charge states of a double quantum dot and show excellent charge sensitivity. We demonstrate tunable coupling up to 13 GHz, obtained by fitting charge polarization lines, and tunable tunnel rates down to below 1 Hz, deduced from the random telegraph signal. The demonstration of tunable coupling between single electrons in a silicon metal-oxide-semiconductor device provides significant scope for high-fidelity two-qubit logic toward quantum information processing with standard manufacturing.
description: 6 pages, 3 figures
Generalized Euler, Smoluchowski and Schrödinger equations admitting self-similar solutions with a Tsallis invariant profile
Creators: name: Chavanis, Pierre-Henri
Publisher: name: arXiv
Year: 2019
Subjects: subject: Statistical Mechanics (cond-mat.stat-mech)
subject: FOS: Physical sciences

description: The damped isothermal Euler equations, the Smoluchowski equation and the damped logarithmic Schrödinger equation with a harmonic potential admit stationary and self-similar solutions with a Gaussian profile. They satisfy an $H$-theorem for a free energy functional involving the von Weizsäcker functional and the Boltzmann functional. We derive generalized forms of these equations in order to obtain stationary and self-similar solutions with a Tsallis profile. In particular, we introduce a nonlinear Schrödinger equation involving a generalized kinetic term characterized by an index $q$ and a power-law nonlinearity characterized by an index $γ$. We derive an $H$-theorem satisfied by a generalized free energy functional involving a generalized von Weizsäcker functional (associated with $q$) and a Tsallis functional (associated with $γ$). This leads to a notion of generalized quantum mechanics and generalized thermodynamics. When $q=2γ-1$, our nonlinear Schrödinger equation admits an exact self-similar solution with a Tsallis invariant profile. Standard quantum mechanics (Schrödinger) and standard thermodynamics (Boltzmann) are recovered for $q=γ=1$.
Gelis cursitans
Creators: name: Kolarov, J.
Publisher: name: Zenodo
Year: 2008
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hymenoptera
Ichneumonidae
Gelis
Gelis cursitans

description: Gelis cursitans (FABRICIUS 1775)
 Ichneumon cursitans FABRICIUS 1775. Syst. Ent. p. 344.
 Gelis cursitans: SCHWARZ 1998: 685, Croatia.
D i s t r i b u t i o n:Europe.
description: Published as part of Kolarov, J., 2008, A Catalogue of the [former] Yugoslavian Ichneumonidae (Hymenoptera, Insecta), pp. 1585-1739 in Linzer biologische Beiträge 40 (2) on page 1630, DOI: 10.5281/zenodo.5431642
Randomization yields simple O(n log star n) algorithms for difficult Omega(n) problems
Creators: name: Devillers, Olivier
Publisher: name: arXiv
Year: 1998
Subjects: subject: Computational Geometry (cs.CG)
subject: FOS: Computer and information sciences
subject: F.2.2

description: We use here the results on the influence graph by Boissonnat et al. to adapt them for particular cases where additional information is available. In some cases, it is possible to improve the expected randomized complexity of algorithms from O(n log n) to O(n log star n). This technique applies in the following applications: triangulation of a simple polygon, skeleton of a simple polygon, Delaunay triangulation of points knowing the EMST (euclidean minimum spanning tree).
description: 16 pages, 6 figures, Proc. 3rd Canad. Conf. Comput. Geom., 1991
Quorum sensing in Vibrio spp.: the complexity of multiple signalling molecules in marine and aquatic environments
Creators: name: Girard, Léa
Publisher: name: Taylor & Francis
Year: 2019
Subjects: subject: Ecology
subject: FOS: Biological sciences
subject: 69999 Biological Sciences not elsewhere classified

description: Quorum sensing (QS) is a density-dependent mechanism enabling bacteria to coordinate their actions via the release of small diffusible molecules named autoinducers (AIs). Vibrio spp. are able to adapt to changing environmental conditions by using a wide range of physiological mechanisms and many species pose a threat for human health and diverse marine and estuarine ecosystems worldwide. Cell-to-cell communication controls many of their vital functions such as niche colonization, survival strategies, or virulence. In this review, I summarize (1) the different known QS pathways (2) the diversity of AIs as well as their biological functions, and (3) the QS-mediated interactions between Vibrio and other organisms. However, the current knowledge is limited to a few pathogenic or bioluminescent species and in order to provide a genus-wide view an inventory of QS genes among 87 Vibrio species has been made. The large diversity of signal molecules and their differential effects on a particular physiological function suggest that the complexity of multiple signalling systems within bacterial communities is far from being fully understood. I question here the real level of specificity of such communication in the environment and discuss the different perspectives in order to better apprehend QS in natural habitats.
title: Voice in Australian creative non-fiction: The project of my belonging
Creators: name: Vlatkovic, Michelle
Publisher: name: Griffith University
Year: 2018
Subjects: subject: Notebook of Belonging
subject: Oral story-telling
subject: Kamilaroi
subject: Literature
subject: Narrative

description: The Notebook of Belonging engages with and contributes distinct values in relation to connection, belonging and narrative. Its ‘Voice’ situates an ontological approach originating from familial and cultural traditions. Multifaceted, it speaks to Western intellectual values, Aboriginality and the transformative nature of silence. Primarily a practise-based creative nonfiction project, the Notebook of Belonging has an embedded exegetical commentary. The exegetical cannot be sliced away at either end without weakening the centre; the centre is not as strong without the exegetical. In this way, there are tensions and there are alignments in how book learnt interacts with oral story. The authority of book knowledge in relation to oral traditions is contested here. The Notebook of Belonging presents knowledge imparted in oral story-telling whereby belonging and connection exist through a shared understanding of the interconnected nature of life and being. Oral story uses silence, repetition and reflection. The use of silence, repetition and reflection imparts knowledge in a non-linear and circular process. Replicating this non-linear, circular approach, the Notebook of Belonging is composed of a fragmented, discontinuous narrative, moving back and forth through time, recounting events in a non-linear order, where the multidimensional nature of time and story are always in dialogue, as they are in life. The intention is to show a constellation of belonging both conceptual and tangible; situated between European and Kamilaroi understandings. The idea of creating a constellation using a discontinuous narrative is also informed by Walter Benjamin’s One-Way Street (2016). Benjamin showed how a fragmented text creates subliminal connections between textual passages, complimented by explicit themes, formal echoes and rhymes; all of these may be structured in such a way to convey a constellation of meaning to the reader (Benjamin, 2016, p. 7). Individual fragments work as philosophical miniatures rather than snap shots. Moments from life recounted in the Notebook of Belonging focus on connection not rupture, informed and in response to Roland Barthes’ Camera Lucida (2010) which presents the concept of the studium and the punctum in relation to the photographic image. The studium is the public broad range of meaning associated with the image. The punctum, on the other hand, is the private association the viewer has with the image. It is conjured by the spectator’s own experience. It is unexpected and consequently remembered (Barthes, 2010, p. 26). Other writers encountered in this research include: Nicholas Rothwell, Ngarta Jinny Bent et al, Kim Scott, Jeanette Winterson, and Helene Cixous. Their works investigate oral story as well as the power of narrative and literature.
Hydrodynamic synchronization of spontaneously beating filaments
Creators: name: Chakrabarti, Brato
name: Saintillan, David
Publisher: name: arXiv
Year: 2019
Subjects: subject: Fluid Dynamics (physics.flu-dyn)
subject: Soft Condensed Matter (cond-mat.soft)
subject: FOS: Physical sciences

description: Using a geometric feedback model of the flagellar axoneme accounting for dynein motor kinetics, we study elastohydrodynamic phase synchronization in a pair of spontaneously beating filaments with waveforms ranging from sperm to cilia and Chlamydomonas. Our computations reveal that both in-phase and anti-phase synchrony can emerge for asymmetric beats while symmetric waveforms go in-phase, and elucidate the mechanism for phase slips due to biochemical noise. Model predictions agree with recent experiments and illuminate the crucial roles of hydrodynamics and mechanochemical feedback in synchronization.
description: 13 pages, 11 figures, 3 supporting movies
Cercyon (Cercyon) nigriceps
Creators: name: Fikáček, Martin
name: Delgado, Juan A.
name: Gentili, Elio
Publisher: name: Zenodo
Year: 2012
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Coleoptera
Hydrophilidae
Cercyon
Cercyon nigriceps

description: Cercyon (Cercyon) nigriceps (Marsham, 1802)
 Material examined. 1 J, 1 ♀, 5 spec. (NMPC): Al Haghier Mts., wadi Madar, 12°33.2′N 54°00.4′, 1180–1230 m a.s.l., 12.–14.xi.2010, J. Hájek lgt.; 2 spec. (NMPC): Al Hagier Mts., W slopes, Skant area, 12°35′52″N 54°00′01″, 1240 m a.s.l., 2.xii.2003, D. Král lgt.; 1 spec. (NMPC): Hadiboh env., 12°65′02″N 54°02′04″E, ca. 10–100 m a.s.l., 21.xi.–12.xii.2003, D. Král lgt.; 1 spec. (NMPC): Zemhon area, 12°30′58″N 54°06′39″E, 270–350 m a.s.l., 3.–4.ii.2010, Purchart & Vybíral lgt.; 2 spec. (CULS): Dixam plateau, Sirhin area, 12°31′08″N 53°59′09″E, 812 m a.s.l., 1.–2.xii.2003, J. Farkač lgt.; 1 spec. (NMPC): same label data, but P. Kabátek lgt.; 4 spec. (NMPC): Dixam plateau, Firmihin (Dracaena forest), 12°28.6′N 54°01.1′E, 490 m a.s.l., 15.–16.xi.2010, J. Bezděk lgt; 1 spec. (PLCL): wadi Ayhaft, 28.ii.–1.iii.2009, P. Lo Cascio & F. Grita lgt.; 6 spec. (NMPC): Dixiam plateau, wadi Esgego, 12°28′09″N 54°00′36″E, 300 m a.s.l., 2.–3.xii.2003, lgt. D. Král.
 Distribution. Originally most probably Oriental (S. Ryndevich, pers. comm.), this species was introduced during or prior to the 19th century to tropical and subtropical areas all over the world, and occurs rarely in adjacent temperate regions. Previously recorded from Socotra Island by WRANIK (2003).
description: Published as part of Fikáček, Martin, Delgado, Juan A. & Gentili, Elio, 2012, The Hydrophiloid beetles of Socotra Island (Coleoptera: Georissidae, Hydrophilidae), pp. 107-130 in Acta Entomologica Musei Nationalis Pragae 52 on page 127, DOI: 10.5281/zenodo.5334580
Pyrazole-based azo-metal(II) complexes as potential bioactive agents: synthesis, characterization, antimicrobial, anti-tuberculosis, and DNA interaction studies
Creators: name: Mallikarjuna Niluvanji Matada
name: Keshavayya Jathi
Publisher: name: Taylor & Francis
Year: 2019
Subjects: subject: Biophysics
subject: Biochemistry
subject: Biotechnology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 20199 Astronomical and Space Sciences not elsewhere classified
subject: FOS: Physical sciences

description: In the present investigation, the bioactive azo-dye ligand 1,5-dimethyl-4-[(3-methyl-5-oxo-1-phenyl-4,5-dihydro-1H-pyrazol-4-yl)diazenyl]-2-phenyl-1,2-dihydro-3H-pyrazol-3-one (L) and its transition metal complexes have been synthesized and characterized by various physical and spectroscopic techniques to elucidate their geometrical structures. The molar conductivity measurements confirmed the non-electrolytic nature of the complexes. EPR spectroscopy indicated that the metal complexes are monomeric in nature and exhibited octahedral geometry. The redox behavior of the copper complex was studied by the cyclic voltammetric technique in DMF solution and the complex showed well-established redox behavior at a scan rate of 0.05 V s−1. The antimicrobial activity of the ligand and its metal complexes were screened against Escherichia coli, Bacillus subtilis, Aspergillus niger, and Candida albicans, and the results indicated increased activity after coordination of the ligand to the metal ions. The metal complexes exhibited enhanced antitubercular activity after chelation against M. tuberculosis. The DNA-binding experiments showed that the ligand and its metal complexes showed effective binding properties through intercalative mode against CT-DNA. All the synthesized molecules showed partial cleavage of supercoiled plasmid pUC18 DNA.
Discrete gap solitons in modulated waveguide arrays
Creators: name: Sukhorukov, Andrey A.
name: Kivshar, Yuri S.
Publisher: name: arXiv
Year: 2002
Subjects: subject: Pattern Formation and Solitons (nlin.PS)
subject: Optics (physics.optics)
subject: FOS: Physical sciences

description: We suggest a novel concept of diffraction management in waveguide arrays and predict the existence of discrete gap solitons that possess the properties of both conventional discrete and Bragg grating solitons. We demonstrate that both the soliton velocity and propagation direction can be controlled by varying the input light intensity.
description: 4 pages, 3 figures
title: Multiword expressions
title: Insights from a multi-lingual perspective
titleType: Subtitle
Creators: name: (:Unkn) Unknown
Publisher: name: Freie Universität Berlin
Year: 2018
Subjects: subject: 400 Sprache::410 Linguistik

description: Multiword expressions (MWEs) are a challenge for both the natural language applications and the linguistic theory because they often defy the application of the machinery developed for free combinations where the default is that the meaning of an utterance can be predicted from its structure. There is a rich body of primarily descriptive work on MWEs for many European languages but comparative work is little. The volume brings together MWE experts to explore the benefits of a multilingual perspective on MWEs. The ten contributions in this volume look at MWEs in Bulgarian, English, French, German, Maori, Modern Greek, Romanian, Serbian, and Spanish. They discuss prominent issues in MWE research such as classification of MWEs, their formal grammatical modeling, and the description of individual MWE types from the point of view of different theoretical frameworks, such as Dependency Grammar, Generative Grammar, Head-driven Phrase Structure Grammar, Lexical Functional Grammar, Lexicon Grammar.
Fractal analysis on a closed classical hard-wall billiard using a simplified box-counting algorithm
Creators: name: Ree, Suhan
Publisher: name: arXiv
Year: 2002
Subjects: subject: Chaotic Dynamics (nlin.CD)
subject: FOS: Physical sciences

description: We perform fractal analysis on a closed classical hard-wall billiard, the circular billiard with a straight cut, assuming there are two openings on the boundary. We use a two-dimensional set of initial conditions that produce all possible trajectories of a particle injected from one opening, and numerically compute the fractal dimension of singular points of a function that maps an initial condition to the number of collisions with the wall before the exit. We introduce a simplified box-counting algorithm, which uses points from a rectangular grid inside the two-dimensional set of the initial conditions, to simplify the calculation, and observe the classical chaotic properties while varying the parameters of the billiard.
description: 4 pages, 4 figures
A Descriptive Analysis of the Most Viewed YouTube Videos Related to Depression
Creators: Baquero, Elizabeth Pessin
Publisher: name: Columbia University
Year: 2018
Subjects: Health education
Mental health education
Internet videos
Depression, Mental

description: Depression contributes to a host of health problems resulting in disability, pain, and death. An important aspect of preventing and reducing the harmful effects of depression is educating the public about this pervasive mental disorder, including the importance of early detection and effective treatment. During the past 20 years, many people have turned to the Internet in general and social media in particular to learn about health.
      Current research has examined YouTube coverage of some mental health topics, but no published research describing YouTube coverage of depression was identified. The purpose of this study was, therefore, to describe the most viewed YouTube about depression with respect to source, speaker, format, purpose, number of views, length, upload year, and content. A cross-sectional design was used to examine the 394 most viewed YouTube videos on depression.
      Collectively, these 394 videos were viewed 155,349,029 times. Three sources—consumers, internet-based video, and nongovernmental agencies—accounted for approximately 85% of the most frequently viewed videos and garnered 93% of the total views (n=144,506,467). Consumers uploaded almost half of all the most widely viewed videos (n=193, 48.98%), and these videos had the highest cumulative view count (74,391,500 views).
      Content mainly focused on signs and symptoms, which were covered in more than 75% of the videos (n=300, 76.14%), and promotion of healthful behaviors and protective factors, which was covered in 68.52% (n=270). Slightly more than one-half of the videos explicitly mentioned risk factors (n=200), and slightly less than one-half provided general information about depression (n=189). Between 20% and 35% of the videos included content related to suicide (23.10%), stigma (22.08%), psychotherapy (28.93%), medication (31.22%), and alternative therapies (30.96%). Content related to screening was only included in 9 of the most widely videos (2.28%). While good sleep hygiene was only mentioned in 28 videos (7.11%), collectively, these videos received over 16 million views. Another main finding was that governmental agencies have not produced videos that are among those most widely viewed. Given YouTube’s wide reach, they should, however, be using this media channel to help inform the public.
Additional file 1 of The tumour response of postmenopausal hormone receptor-positive breast cancers undergoing different types of neoadjuvant therapy: a meta-analysis
Creators: name: Wang, Yaling
name: He, Lin
name: Song, Yuhua
name: Wu, Qian
name: Wang, Haiji
name: Zhang, Biyuan
name: Ma, Xuezhen
Publisher: name: figshare
Year: 2020
Subjects: subject: Space Science
subject: Medicine
subject: Chemical Sciences not elsewhere classified
subject: Sociology
subject: FOS: Sociology
subject: Biological Sciences not elsewhere classified
subject: Mathematical Sciences not elsewhere classified
subject: Developmental Biology
subject: Cancer

description: Additional file 1: Table S1. Study quality of eligible randomized controlled trials. Table S2. The detailed risk of bias assessments. Table S3. The publication bias by Eggerâ€™s test.
Exploiting Causal Independence in Bayesian Network Inference
Creators: name: Zhang, N. L.
name: Poole, D.
Publisher: name: arXiv
Year: 1996
Subjects: subject: Artificial Intelligence (cs.AI)
subject: FOS: Computer and information sciences

description: A new method is proposed for exploiting causal independencies in exact Bayesian network inference. A Bayesian network can be viewed as representing a factorization of a joint probability into the multiplication of a set of conditional probabilities. We present a notion of causal independence that enables one to further factorize the conditional probabilities into a combination of even smaller factors and consequently obtain a finer-grain factorization of the joint probability. The new formulation of causal independence lets us specify the conditional probability of a variable given its parents in terms of an associative and commutative operator, such as ``or'', ``sum'' or ``max'', on the contribution of each parent. We start with a simple algorithm VE for Bayesian network inference that, given evidence and a query variable, uses the factorization to find the posterior distribution of the query. We show how this algorithm can be extended to exploit causal independence. Empirical studies, based on the CPCS networks for medical diagnosis, show that this method is more efficient than previous methods and allows for inference in larger networks than previous algorithms.
description: See http://www.jair.org/ for any accompanying files
Gelis formicarius
Creators: name: Kolarov, J.
Publisher: name: Zenodo
Year: 2008
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hymenoptera
Ichneumonidae
Gelis
Gelis formicarius

description: Gelis formicarius (LINNAEUS 1758)
 Mutilla formicaria LINNAEUS 1758. Syst. nat. 1 (10): 820.
 Pezomachus formicarius: STROBL 1900: 247.
 Gelis formicarius: SCHWARZ 1998: 67, Croatia.
D i s t r i b u t i o n: Europe and Azerbaijan.
description: Published as part of Kolarov, J., 2008, A Catalogue of the [former] Yugoslavian Ichneumonidae (Hymenoptera, Insecta), pp. 1585-1739 in Linzer biologische Beiträge 40 (2) on page 1630, DOI: 10.5281/zenodo.5431642
Additional file 1 of Standards for reporting interventions in clinical trials of cupping (STRICTOC): extending the CONSORT statement
Creators: name: Zhang, Xuan
name: Tian, Ran
name: Lam, Wai
name: Duan, Yuting
name: Liu, Fan
name: Zhao, Chen
name: Wu, Taixiang
name: Shang, Hongcai
name: Tang, Xudong
name: Lyu, Aiping
name: Bian, Zhaoxiang
Publisher: name: figshare
Year: 2020
Subjects: subject: Medicine
subject: Molecular Biology
subject: Pharmacology
subject: Sociology
subject: FOS: Sociology
subject: Biological Sciences not elsewhere classified
subject: Mathematical Sciences not elsewhere classified
subject: Developmental Biology

description: Additional file 1: Appendix S1. STRICTOC working group members (in alphabetical order). Appendix S2. Consensus meeting experts (in alphabetical order).
Additional file 1 of Zhenqing recipe attenuates non-alcoholic fatty liver disease by regulating the SIK1/CRTC2 signaling in experimental diabetic rats
Creators: name: Song, Daofei
name: Yin, Lei
name: Wang, Chang
name: Wen, Xiuying
Publisher: name: figshare
Year: 2020
Subjects: Biochemistry
Molecular Biology
Chemical Sciences not elsewhere classified
Biological Sciences not elsewhere classified
Marine Biology
Computational Biology

description: Additional file 1. ARRIVE checklist.
Towards holography in the BV-BFV setting
Creators: name: Mnev, Pavel
name: Schiavina, Michele
name: Wernli, Konstantin
Publisher: name: arXiv
Year: 2019
Subjects: subject: Mathematical Physics (math-ph)
subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences
subject: 81T70, 81T45, 81T13, 81T40

description: We show how the BV-BFV formalism provides natural solutions to descent equations, and discuss how it relates to the emergence of holographic counterparts of given gauge theories. Furthermore, by means of an AKSZ-type construction we reproduce the Chern-Simons to Wess-Zumino-Witten correspondence from infinitesimal local data, and show an analogous correspondence for BF theory. We discuss how holographic correspondences relate to choices of polarisation relevant for quantisation, proposing a semi-classical interpretation of the quantum holographic principle.
description: 42 pages, Accepted manuscript. A comment on the Poisson Sigma model was added. Few stylistic improvements
Studies on Pd(1,4-bis(2-hydroxyethyl)piperazine)-dicarboxylic acid complexes as models for carboplatin with structural features enhancing the interaction with DNA
Creators: name: Shehata, Mohamed R.
name: Shoukry, Mohamed M.
name: Mabrouk, Mahmoud A.
name: Kozakiewicz, Anna
name: Eldik, Rudi Van
Publisher: name: Taylor & Francis
Year: 2020
Subjects: subject: Biophysics
subject: Biochemistry
subject: Space Science
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: Cancer

description: [Pd(BHEP)Cl2] and [Pd(BHEP)(CBDA)] complexes, where BHEP = 1,4-bis(2-hydroxyethyl)piperazine and CBDA = cyclobutanedicarboxylate, were synthesized and characterized. [Pd(BHEP) (CBDA)] crystallizes in space group P21, a = 9.5740(8) Å, b = 9.4700(7) Å, c = 9.7890(10) Å, α = 90.00°, β = 113.360(5)°, γ = 90.00°, V = 814.78(13) Å3, Z = 2. The palladium center has a typical square planar geometry with tetrahedral distortion. DFT calculations show good agreement between theoretical and X-ray data. The stability constants and stoichiometry of the complexes formed between various dicarboxylic acids and [Pd(BHEP)(H2O)2]2+ were studied. Dicarboxylic acids form 1:1 and protonated complexes. Inosine forms 1:1, 1:2 and the protonated form of 1:1 complexes. The temperature effect on the formation constant of the cyclobutanedicarboxylate complex was investigated. The hydrolysis of [Pd(BHEP)(H2O)2]2+ and complex formation with cyclobutanedicarboxylic acid are exothermic processes.
Additional file 2 of Zhenqing recipe attenuates non-alcoholic fatty liver disease by regulating the SIK1/CRTC2 signaling in experimental diabetic rats
Creators: name: Song, Daofei
name: Yin, Lei
name: Wang, Chang
name: Wen, Xiuying
Publisher: name: figshare
Year: 2020
Subjects: Biochemistry
Molecular Biology
Chemical Sciences not elsewhere classified
Biological Sciences not elsewhere classified
Marine Biology

description: Additional file 2: Table S1. Sequences of primers used for PCR analysis.
The impact of long-distance mutations on the Ω-loop conformation in TEM type β-lactamases
Creators: name: Shcherbinin, Dmitrii
name: Veselovsky, Alexander
name: Rubtsova, Maya
name: Grigorenko, Vitaly
name: Egorov, Alexey
Publisher: name: Taylor & Francis
Year: 2019
Subjects: subject: Biophysics
subject: Biochemistry
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Molecular Biology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Computational Biology

description: β-lactamases are hydrolytic enzymes primarily responsible for occurrence and abundance of bacteria resistant to beta-lactam antibiotics. TEM type beta-lactamases are formed by the parent enzyme TEM-1 and more than two hundred of its mutants. Positions for the known amino acid substitutions cover ∼80% of TEM type enzyme's sequence. These substitutions are divided into the key mutations that lead to changes in catalytic properties of β-lactamases, and the secondary ones, which role is poorly understood. In this study Residue Interaction Networks were constructed from molecular dynamic trajectories of beta-lactamase TEM-1 and its variants with two key substitutions, G238S and E240K, and their combinations with secondary ones (M182T and Q39K). Particular attention was paid to a detailed analysis of the interactions that affect conformation and mobility of the Ω-loop, representing a part of the β-lactamase active site. It was shown that key mutations weakened the stability of contact inside the Ω-loop thus increasing its mobility. Combination of three amino acid substitutions, including the 182 residue, leads to the release of R65 promoting its new contacts with N175 and D176. As a result, Ω-loop is fixed on the protein globule. The second distal mutation Q39K prevents changes in spatial position of R65, which lead to the weakening of the effect of M182T substitution and the recovery of the Ω-loop mobility. Thus, the distal secondary mutations are directed for recovering the mobility of enzyme disturbed by the key mutations responsible for expansion of substrate specificity.
Gelis heidenreichi HABERMEHL 1930
Creators: name: Kolarov, J.
Publisher: name: Zenodo
Year: 2008
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hymenoptera
Ichneumonidae
Gelis
Gelis heidenreichi

description: Gelis heidenreichi HABERMEHL 1930
 Gelis heidenreichi HABERMEHL 1930. Konowia 9: 112.
 Gelis heidenreichi: SCHWARZ 1998: 639, Croatia.
D i s t r i b u t i o n: Germany, Austria, Croatia and Romania.
description: Published as part of Kolarov, J., 2008, A Catalogue of the [former] Yugoslavian Ichneumonidae (Hymenoptera, Insecta), pp. 1585-1739 in Linzer biologische Beiträge 40 (2) on page 1631, DOI: 10.5281/zenodo.5431642
title: Punching Shear Failure Analysis of Reinforced Concrete Flat Plates Using Simplified Ust Failure Criterion
Creators: name: Zhang, Xuesong
Publisher: name: Griffith University
Year: 2003
Subjects: subject: Reinforced concrete structures
subject: unified strength theory
subject: octahedral shear stress model
subject: concrete tensile strength
subject: triaxial stress
subject: uniaxial stress
subject: flexural analysis

description: Failure criteria play a vital role in the numerical analysis of reinforced concrete structures. The current failure criteria can be classified into two types, namely the empirical and theoretical failure criteria. Empirical failure criteria normally lack reasonable theoretical backgrounds, while theoretical ones either involve too many parameters or ignore the effects of intermediate principal stress on the concrete strength. Based on the octahedral shear stress model and the concrete tensile strength under the state of triaxial and uniaxial stress, a new failure criterion, that is, the simplified unified strength theory (UST), is developed by simplifiing the five-parameter UST for the analysis of reinforced concrete structures. According to the simplified UST failure criterion, the concrete strength is influenced by the maximum and intermediate principal shear stresses together with the corresponding normal stresses. Moreover, the effect of hydrostatic pressure on the concrete strength is also taken into account. The failure criterion involves three concrete strengths, namely the uniaxial tensile and compressive strengths and the equal biaxial compressive strength. In the numerical analysis, a degenerated shell element with the layered approach is adopted for the simulation of concrete structures. In the layered approach, concrete is divided into several layers over the thickness of the elements and reinforcing steel is smeared into the corresponding number of layers of equivalent thickness. In each concrete layer, three-dimensional stresses are calculated at the integration points. For the material modelling, concrete is treated as isotropic material until cracking occurs. Cracked concrete is treated as an orthotropic material incorporating tension stiffening and the reduction of cracked shear stiffness. Meanwhile, the smeared craclc model is employed. The bending reinforcements and the stirrups are simulated using a trilinear material model. To verify the correctness of the simplified UST failure criterion, comparisons are made with concrete triaxial empirical results as well as with the Kupfer and the Ottosen failure criteria. Finally, the proposed failure criterion is used for the flexural analysis of simply supported reinforced concrete beams. Also conducted are the punching shear analyses of single- and multi-column-slab connections and of half-scale flat plate models. In view of its accuracy and capabilities, the simplified UST failure criterion may be used to analyse beam- and slab-type reinforced concrete structures.
Nonlinear deformed su(2) algebras involving two deforming functions
Creators: name: Bonatsos, D.
name: Daskaloyannis, C.
name: Kolokotronis, P.
name: Ludu, A.
name: Quesne, C.
Publisher: name: arXiv
Year: 1997
Subjects: subject: Quantum Algebra (math.QA)
subject: High Energy Physics - Theory (hep-th)
subject: Mathematical Physics (math-ph)
subject: FOS: Mathematics
subject: FOS: Physical sciences

description: The most common nonlinear deformations of the su(2) Lie algebra, introduced by Polychronakos and Ro\v cek, involve a single arbitrary function of J_0 and include the quantum algebra su_q(2) as a special case. In the present contribution, less common nonlinear deformations of su(2), introduced by Delbecq and Quesne and involving two deforming functions of J_0, are reviewed. Such algebras include Witten's quadratic deformation of su(2) as a special case. Contrary to the former deformations, for which the spectrum of J_0 is linear as for su(2), the latter give rise to exponential spectra, a property that has aroused much interest in connection with some physical problems. Another interesting algebra of this type, denoted by ${\cal A}^+_q(1)$, has two series of (N+1)-dimensional unitary irreducible representations, where N=0, 1, 2, .... To allow the coupling of any two such representations, a generalization of the standard Hopf axioms is proposed. The resulting algebraic structure, referred to as a two-colour quasitriangular Hopf algebra, is described.
description: 8 pages, LaTeX, no figures, submitted to Proc. 5th Int. Coll. ``Quantum Groups and Integrable Systems'', Prague, 20-22 June 1996 (to be published in Czech. J. Phys.)
A tagger for strange jets based on tracking information using long short-term memory
Creators: name: Erdmann, Johannes
Publisher: name: arXiv
Year: 2019
Subjects: subject: Instrumentation and Detectors (physics.ins-det)
subject: High Energy Physics - Experiment (hep-ex)
subject: FOS: Physical sciences

description: An algorithm for the identification of jets that originate from the hadronisation of strange quarks is presented, which complements existing algorithms for the identification of jets that originate from $b$-quarks and $c$-quarks. The algorithm is based on the properties of tracks and uses long short-term memory recurrent neural networks to discriminate between jets from strange quarks and jets from down and up quarks. The performance of the algorithm is compared to a simple benchmark algorithm that uses the transverse-momentum fraction carried by a reconstructed $K_S \rightarrow π^+π^-$ decay. While the benchmark algorithm is limited to signal efficiencies smaller than 13%, the proposed algorithm is not limited in efficiency. For signal efficiencies of 30% and 70%, background efficiencies of 21% and 63% are achieved, indicating the challenge of discriminating strange jets from jets that originate from first-generation quarks.
description: 24 pages, 11 figures
Data-Efficient and Safe Learning for Humanoid Locomotion Aided by a Dynamic Balancing Model
Creators: name: Ahn, Junhyeok
name: Lee, Jaemin
name: Sentis, Luis
Publisher: name: arXiv
Year: 2019
Subjects: subject: Robotics (cs.RO)
subject: FOS: Computer and information sciences

description: In this letter, we formulate a novel Markov Decision Process (MDP) for safe and data-efficient learning for humanoid locomotion aided by a dynamic balancing model. In our previous studies of biped locomotion, we relied on a low-dimensional robot model, commonly used in high-level Walking Pattern Generators (WPGs). However, a low-level feedback controller cannot precisely track desired footstep locations due to the discrepancies between the full order model and the simplified model. In this study, we propose mitigating this problem by complementing a WPG with reinforcement learning. More specifically, we propose a structured footstep control method consisting of a WPG, a neural network, and a safety controller. The WPG provides an analytical method that promotes efficient learning while the neural network maximizes long-term rewards, and the safety controller encourages safe exploration based on step capturability and the use of control-barrier functions. Our contributions include the following (1) a structured learning control method for locomotion, (2) a data-efficient and safe learning process to improve walking using a physics-based model, and (3) the scalability of the procedure to various types of humanoid robots and walking.
description: 8 pages, 7 figures
Estimation of English and non-English Language Use on the WWW
Creators: name: Grefenstette, Gregory
name: Nioche, Julien
Publisher: name: arXiv
Year: 2000
Subjects: subject: Computation and Language (cs.CL)
subject: Human-Computer Interaction (cs.HC)
subject: FOS: Computer and information sciences
subject: J.5; H.5.2; I.2.7; H.3.5; H.5.3

description: The World Wide Web has grown so big, in such an anarchic fashion, that it is difficult to describe. One of the evident intrinsic characteristics of the World Wide Web is its multilinguality. Here, we present a technique for estimating the size of a language-specific corpus given the frequency of commonly occurring words in the corpus. We apply this technique to estimating the number of words available through Web browsers for given languages. Comparing data from 1996 to data from 1999 and 2000, we calculate the growth of a number of European languages on the Web. As expected, non-English languages are growing at a faster pace than English, though the position of English is still dominant.
Studies on Pd(1,4-bis(2-hydroxyethyl)piperazine)-dicarboxylic acid complexes as models for carboplatin with structural features enhancing the interaction with DNA
Creators: name: Shehata, Mohamed R.
name: Shoukry, Mohamed M.
name: Mabrouk, Mahmoud A.
name: Kozakiewicz, Anna
name: Eldik, Rudi Van
Publisher: name: Taylor & Francis
Year: 2019
Subjects: subject: Biophysics
subject: Biochemistry
subject: Space Science
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: Cancer

description: [Pd(BHEP)Cl2] and [Pd(BHEP)(CBDA)] complexes, where BHEP = 1,4-bis(2-hydroxyethyl)piperazine and CBDA = cyclobutanedicarboxylate, were synthesized and characterized. [Pd(BHEP) (CBDA)] crystallizes in space group P21, a = 9.5740(8) Å, b = 9.4700(7) Å, c = 9.7890(10) Å, α = 90.00°, β = 113.360(5)°, γ = 90.00°, V = 814.78(13) Å3, Z = 2. The palladium center has a typical square planar geometry with tetrahedral distortion. DFT calculations show good agreement between theoretical and X-ray data. The stability constants and stoichiometry of the complexes formed between various dicarboxylic acids and [Pd(BHEP)(H2O)2]2+ were studied. Dicarboxylic acids form 1:1 and protonated complexes. Inosine forms 1:1, 1:2 and the protonated form of 1:1 complexes. The temperature effect on the formation constant of the cyclobutanedicarboxylate complex was investigated. The hydrolysis of [Pd(BHEP)(H2O)2]2+ and complex formation with cyclobutanedicarboxylic acid are exothermic processes.
A Unified Approach to Carbocyclic Frameworks: DTDA Sequences in Total Synthesis
Creators: name: Joshua William, Boyle
Publisher: name: The Australian National University
Year: 2015
Subjects: Diels-Alder
DTDA
Total Synthesis
Methodology
Domino reactions
Cross-coupling reactions
xestoquinone

description: [3]Dendralene is a small π-­rich hydrocarbon that is capable of taking part in a wide range of chemical reactions, not least of which is the diene transmissive Diels–Alder (DTDA) reaction sequence. Unfortunately, the synthesis of this molecule relies on highly toxic and commercially unavailable intermediates, namely chloroprene. Chapter 1 of this thesis details a new synthetic approach to [3]dendralene via a double cross coupling reaction beginning with 1,1-­‐‑ dichloroethylene and vinyl magnesium bromide. This work was extended to the synthesis of a variety of symmetrically substituted [3]dendralenes. Chapter 2 details the exploration of the Diels–Alder reactivity of [3]dendralene. While there has been some experimental work examining [3]dendralene in DTDA sequences, these have tended to focus on symmetrical and highly reactive dienophiles. This chapter describes the use of unsymmetrical dienophiles, which are either cyclic or acyclic in nature. This enables the synthesis of a range of polycyclic frameworks in just two steps. Through this methodology, the synthesis of bicyclic, linear tricyclic, angular tricyclic and angular tetracyclic structures is possible. The angular tetracyclic framework mentioned above is present in a number of natural products, including marine sponge derived compounds xestoquinone and halenaquinone. Chapter 3 presents a comprehensive review into previous syntheses of these two natural products as well as briefly examining work towards related natural products. Finally, Chapter 4 details our attempts to apply a DTDA reaction sequence beginning with [3]dendralene to the total synthesis of the natural product xestoquinone. [3]dendralene was reacted sequentially with two carbocyclic dienophiles before a series of functional group manipulations led to an advanced precursor of the targeted natural product.