cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Canonical dual theory applied to a Lennard-Jones potential minimization problem
Creators: name: Zhang, Jiapu
Publisher: name: arXiv
Year: 2011
Subjects: subject: Optimization and Control (math.OC)
subject: Biological Physics (physics.bio-ph)
subject: Biomolecules (q-bio.BM)
subject: FOS: Mathematics
subject: FOS: Physical sciences
subject: FOS: Biological sciences

description: The simplified Lennard-Jones (LJ) potential minimization problem is $f(x)=4\sum_{i=1}^N \sum_{j=1,j
description: Please cite this paper as a book-chapter: "Jiapu Zhang (2011), Canonical dual theory applied to a Lennard-Jones potential minimization problem, in Book [Jiapu Zhang, Practical Global Optimization Computing Methods in Molecular Modelling - for Atomic-resolution Structures of Amyloid Fibrils, ISBN 978-3-8465-2139-7, LAP Academic Publisher, 2011], Chapter 5, pages 94-114
Unified tensor network theory for frustrated classical spin models in two dimensions
Creators: name: Song, Feng-Feng
name: Lin, Tong-Yu
name: Zhang, Guang-Ming
Publisher: name: arXiv
Year: 2023
Subjects: subject: Statistical Mechanics (cond-mat.stat-mech)
subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: FOS: Physical sciences

description: Frustration is a ubiquitous phenomenon in many-body physics that influences the nature of the system in a profound way with exotic emergent behavior. Despite its long research history, the analytical or numerical investigations on frustrated spin models remain a formidable challenge due to their extensive ground state degeneracy. In this work, we propose a unified tensor network theory to numerically solve the frustrated classical spin models on various two-dimensional (2D) lattice geometry with high efficiency. We show that the appropriate encoding of emergent degrees of freedom in each local tensor is of crucial importance in the construction of the infinite tensor network representation of the partition function. The frustrations are thus relieved through the effective interactions between emergent local degrees of freedom. Then the partition function is written as a product of a one-dimensional (1D) transfer operator, whose eigen-equation can be solved by the standard algorithm of matrix product states rigorously, and various phase transitions can be accurately determined from the singularities of the entanglement entropy of the 1D quantum correspondence. We demonstrated the power of our unified theory by numerically solving 2D fully frustrated XY spin models on the kagome, square and triangular lattices, giving rise to a variety of thermal phase transitions from infinite-order Brezinskii-Kosterlitz-Thouless transitions, second-order transitions, to first-order phase transitions. Our approach holds the potential application to other types of frustrated classical systems like Heisenberg spin antiferromagnets.
description: 20 pages, 19 figures
Tor : un instrument contre la censure et la surveillance électronique de masse
Creators: name: Belvèze, Damien
Publisher: name: Zenodo
Year: 2025

description: Un atelier sur Tor présenté dans le cadre du Stretching Numérique 

Le Stretching Numérique est un événement organisé par les bibliothèques de plusieurs écoles de l'enseignement supérieur et de plusieurs universités qui a lieu chaque année dans la dernière quinzaine de mars. Cet événement rassemble des webinaires qui sont présentés par des bibliothécaires sur des sujets liés à la culture numérique en général ; il ne s'agit pas d'ateliers portant sur la méthodologie documentaire. En animant au moins deux webinaires, les bibliothécaires d'une université donnent accès à l'ensemble des webinaires à leur communauté universitaire. 

Cet atelier sur Tor a été proposé par Damien Belvèze, conservateur de bibliothèque le 27 mars 2025 de 13h30 à 14h30 à une quinzaine de personnes. 

Tor 

Tor est un réseau internet constitué de routeurs qui ont la particularité de disposer de couches cryptographiques rendant impossible le fait de retracer une requête depuis le site de destination jusqu'à la personne qui en est l'auteur ou l'autrice. Dans cet atelier d'une heure, nous expliquons les bases du fonctionnement de Tor, présentons le navigateur Tor, les services cachés du réseau, les associations qui font vivre le réseau en France. Nous présentons deux cas de figure : l'accès à travers Tor à des médias qui disposent ou pas d'un service caché et l'accès à la page de téléchargement de Tor Project depuis une IP située en Russie (en mars 2025, cette page était inaccessible pour des raisons de censure avec des navigateurs classiques). Nous présentons enfin les ponts (bridges) qui permettent de circonvenir la censure du réseau dans les pays où elle s'exerce et finalement nous mettons l'accent sur les attaques réalisées contre le réseau et les limites de cet outil.  

Le support de l'atelier est accessible à l'adresse https://tor.dbelveze.fr 

Il a été réalisé avec Obsidian et le plugin "advanced slides" (RevealJS) d'Obsidian

Il est réutilisable sous la licence CC:by -4.0
Spin fluctuations and unconventional pairing in KFe$_2$As$_2$
Creators: name: Suzuki, Katsuhiro
name: Usui, Hidetomo
name: Kuroki, Kazuhiko
Publisher: name: arXiv
Year: 2011
Subjects: subject: Superconductivity (cond-mat.supr-con)
subject: FOS: Physical sciences

description: We study the relation between the spin fluctuation and superconductivity in an heavily hole doped end material KFe$_2$As$_2$. We construct a five orbital model by approximately unfolding the Brillouin zone of the three dimensional ten orbital model obtained from first principles calculation. By applying the random phase approximation, we obtain the spin susceptibility and solve the linearized Eliashberg equation. The incommensurate spin fluctuation observed experimentally is understood as originating from interband interactions, where the multiorbital nature of the band structure results in an electron-hole asymmetry of the incommensurability in the whole iron-based superconductor family. As for superconductivity, s-wave and d-wave pairings are found to be in close competition, where the sign change in the gap function in the former is driven by the incommensurate spin fluctuations. We raise several possible explanations for the nodes in the superconducting gap of KFe$_2$As$_2$ observed experimentally.
description: 9 pages, 7 figures
Diquark Explanation of $b\to s\ell^+\ell^-$
Creators: name: Crivellin, Andreas
name: Kirk, Matthew
Publisher: name: arXiv
Year: 2023
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: High Energy Physics - Experiment (hep-ex)
subject: High Energy Physics - Lattice (hep-lat)
subject: FOS: Physical sciences

description: The discrepancies between $b\to s\ell^+\ell^-$ data and the corresponding Standard Model predictions point to the existence of new physics with a significance at the $5σ$ level. While previously a lepton flavour universality violating effect was preferred, the new $R(K^{(*)})$ and $B_s\toμ^+μ^-$ measurements are now compatible with the Standard Model, favouring a lepton flavour universal beyond the Standard Model contribution to $C_9$. Since heavy new physics is generally chiral, and because of the stringent constraints from charged lepton flavour violation, this poses a challenge for model building. In this article, we point out a novel possibility: a diquark, i.e. a coloured scalar, induces the Wilson coefficient of the $(\bar s γ^μP_L b) (\bar c γ_μP_L c)$ operator at tree-level, which then mixes into $O_9$ via an off-shell photon penguin. This setup allows for a lepton flavour universal effect of $C_9\approx-0.5$, without violating bounds from $ΔM_s$, $ΔΓ$, $B\to X_sγ$ and $D^0-\bar D^0$ mixing. This scenario predicts a small and negative $C_9^{\prime}$ and a light diquark, preferably with a mass around $500\,$GeV, as compatible with the CMS di-di-jet analysis, and a deficit in the inclusive $b\to c\bar c s$ rate.
description: 12 pages, 1 figure. v2: Journal version - added references, fixed typos, moved some large equations to appendix
Three new 5,6,7,8-tetrahydro-2-(2-phenylethyl)chromones and one new dimeric 2-(2-phenylethyl)chromone from agarwood of Aquilaria crassna Pierre ex Lecomte in Laos
Creators: name: Zhao, Yang-Mei
name: Yang, Li
name: Kong, Fan-Dong
name: Dong, Wen-Hua
name: Li, Wei
name: Chen, Hui-Qin
name: Wang, Hao
name: Cai, Cai-Hong
name: Gai, Cui-Juan
name: Mei, Wen-Li
name: Dai, Hao-Fu
Publisher: name: Taylor & Francis
Year: 2019
Subjects: subject: Biophysics
subject: Biochemistry
subject: Space Science
subject: Cell Biology
subject: Pharmacology
subject: Environmental Sciences not elsewhere classified
subject: Chemical Sciences not elsewhere classified
subject: Biological Sciences not elsewhere classified
subject: Inorganic Chemistry
subject: FOS: Chemical sciences

description: Three new 5,6,7,8-tetrahydro-2-(2-phenylethyl)chromones and one new dimeric 2-(2-phenylethyl)chromone were isolated from the agarwood of Aquilaria crassna Pierre ex Lecomte in Laos. The structures of the isolates were elucidated by spectroscopic methods, and their configurations were determined via ROESY correlations, 3
J
H-H coupling constants analyses, comparisons of chemical shifts and specific rotations with known compounds, and ECD calculation in the case of 1. Compounds 1–4 were evaluated for their cytotoxicity. Compounds 1 and 2 exhibited weak cytotoxicity toward HeLa cell line (IC50: 49.8 ± 1.2 μM) and K562 cell line (IC50: 42.66 ± 0.47 μM), respectively.
Identification of noise artifacts in searches for long-duration gravitational-wave transients
Creators: name: Prestegard, Tanner
name: Thrane, Eric
name: Christensen, Nelson L.
name: Coughlin, Michael W.
name: Hubbert, Ben
name: Kandhasamy, Shivaraj
name: MacAyeal, Evan
name: Mandic, Vuk
Publisher: name: arXiv
Year: 2011
Subjects: subject: Instrumentation and Methods for Astrophysics (astro-ph.IM)
subject: General Relativity and Quantum Cosmology (gr-qc)
subject: FOS: Physical sciences

description: We present an algorithm for the identification of transient noise artifacts (glitches) in cross-correlation searches for long O(10s) gravitational-wave transients. The algorithm utilizes the auto-power in each detector as a discriminator between well-behaved Gaussian noise (possibly including a gravitational-wave signal) and glitches. We test the algorithm with both Monte Carlo noise and time-shifted data from the LIGO S5 science run and find that it is effective at removing a significant fraction of glitches while keeping the vast majority (99.6%) of the data. Using an accretion disk instability signal model, we estimate that the algorithm is accidentally triggered at a rate of less than 10^-5% by realistic signals, and less than 3% even for exceptionally loud signals. We conclude that the algorithm is a safe and effective method for cleaning the cross-correlation data used in searches for long gravitational-wave transients.
description: 13 pages, 8 figures, LIGO document #P1100129
Stochastic tuning of gene expression enables cellular adaptation in the absence of pre-existing regulatory circuitry
Creators: name: Freddolino, Peter L.
name: Yang, Jamie Siyu
name: Momen-Roknabadi, Amir
name: Tavazoie, Saeed
Publisher: name: Columbia University
Year: 2018
Subjects: Gene regulatory networks
Systems biology
Gene expression
Stochastic processes
Epigenetics

description: Cells adapt to familiar changes in their environment by activating predefined regulatory programs that establish adaptive gene expression states. These hard-wired pathways, however, may be inadequate for adaptation to environments never encountered before. Here, we reveal evidence for an alternative mode of gene regulation that enables adaptation to adverse conditions without relying on external sensory information or genetically predetermined cis-regulation. Instead, individual genes achieve optimal expression levels through a stochastic search for improved fitness. By focusing on improving the overall health of the cell, the proposed stochastic tuning mechanism discovers global gene expression states that are fundamentally new and yet optimized for novel environments. We provide experimental evidence for stochastic tuning in the adaptation of Saccharomyces cerevisiae to laboratory-engineered environments that are foreign to its native gene-regulatory network. Stochastic tuning operates locally at individual gene promoters, and its efficacy is modulated by perturbations to chromatin modification machinery.
Phalloceros harpagos Lucinda 2008
Creators: name: Smith, Welber Senteio
name: Halcsik, Leticia
name: Biagioni, Renata Cassemiro
name: Pinheiro, Lúcio Antônio Stefani
name: Severino Stefani, Marta
Publisher: name: Zenodo
Year: 2021
Subjects: Biodiversity
Taxonomy
Animalia
Chordata
Actinopterygii
Cyprinodontiformes
Poeciliidae
Phalloceros
Phalloceros harpagos

description: Phalloceros harpagos Lucinda, 2008 Figure 2X Material examined. BRAZIL – São Paulo • Iperó, Ipanema River; 23°25.38′S, 047°28.36′W; 560 m alt; 08.II.2016; W.S. Smith and L. Halcsik leg.; hand nets; LEEF 120804-1 (18 spec., 10.0−25.0 mm SL). Identification. Body elongated; mouth superior, dentary prognathous; premaxilla and dentary with several small teeth. Longitudinal series with 28–32 scales and transverse series with 7–9 scale rows; dorsal fin with 7 rays, pectoral fin with 11–13 rays, pelvic with 5 and anal fin with 10–12 rays (female) or 8–10 rays (male). Ground color yellowish brown; dark-brown lateral spot, vertically elongated; scales with dark-brown border, conferring reticulate pattern to body (Ota et al. 2018).
description: Published as part of Smith, Welber Senteio, Halcsik, Leticia, Biagioni, Renata Cassemiro, Pinheiro, Lúcio Antônio Stefani & Severino Stefani, Marta, 2021, An updated list of the ichthyofauna of Ipanema National Forest, São Paulo, Brazil, pp. 827-840 in Check List 17 (3) on page 838, DOI: 10.15560/17.3.827
description: {"references": ["Ota RR, Depra GDC, Graca WJD, Pavanelli CS (2018) Peixes da pla- nicie de inundacao do alto rio Parana e areas adjacentes: revised, annotated and updated. Neotropical Ichthyology 16 (2): 10 - 15."]}
$B\to D_0^*$ and $B_s\to D_{s0}^*$ form factors from QCD light-cone sum rules
Creators: name: Gubernari, Nico
name: Khodjamirian, Alexander
name: Mandal, Rusa
name: Mannel, Thomas
Publisher: name: arXiv
Year: 2023
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: High Energy Physics - Experiment (hep-ex)
subject: FOS: Physical sciences

description: We present the first application of QCD light-cone sum rules (LCSRs) with $B_{(s)}$-meson distribution amplitudes to the $B_{(s)}\!\to\! D_{(s)0}^*$ form factors, where $D_{(s)0}^*$ is a charmed scalar meson. We consider two scenarios for the $D_0^*$ spectrum. In the first one, we follow the Particle Data Group and consider a single broad resonance $D_0^*(2300)$. In the second one, we assume the existence of two scalar resonances, $D_0^*(2105)$ and $D_0^*(2451)$, as follows from a recent theoretically motivated analysis of $B\to Dππ$ decays. The $B\!\to\! D_0^*$ form factors are calculated in both scenarios, also taking into account the large total width of $D_0^*(2300)$. Furthermore, we calculate the $B_s\!\to\! D_{s0}^*$ form factors, considering in this case only the one-resonance scenario with $D_{s0}(2317)$. In this LCSRs calculation, the $c$-quark mass is kept finite and the $s$-quark mass is taken into account. We also include contributions of the two- and three-particle distribution amplitudes up to twist-four. Our predictions for semileptonic $B\!\to\! D_0^*\ellν_\ell$ and $B_s\!\to\! D_{s0}^*\ellν_\ell$ branching ratios are compared with the available data and HQET-based predictions. As a byproduct, we also obtain the $D_0^*$- and $D_{s0}^*$-meson decay constants and predict the lepton flavour universality ratios $R(D_0^*)$ and $R(D_{s0}^*)$.
description: 28 pages, 3 figures, table added, minor corrections
Ultrafast Time-Resolved Faraday Rotation in EuO Thin Films
Creators: name: Liu, F.
name: Makino, T.
name: Yamazaki, T.
name: Ueno, K.
name: Tsukazaki, A.
name: Fukumura, T.
name: Kong, Y.
name: Kawasaki, M.
Publisher: name: arXiv
Year: 2012
Subjects: subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: We have investigated the ultrafast spin dynamics in EuO thin films by time-resolved Faraday rotation spectroscopy. The photoinduced magnetization is found to be increased in a transient manner, accompanied with subsequent demagnetization. The dynamical magnetization enhancement showed a maximum slightly below the Curie temperature with prolonged tails toward both lower and higher temperatures and dominates the demagnetization counterpart at 55 K. The magnetization enhancement component decays in ~1 ns. The realization of the transient collective ordering is attributable to the enhancement of the f-d exchange interaction.
description: 8 pages, 4 figures, accepted for publication in Phys. Rev. Lett
title: Use of neural networks to forecast the abundance of Argentine hake in the Southwest Atlantic
Creators: name: Estévez, M. Darriba
name: Vilas, L. González
name: Martínez, G.
name: Palenzuela, J. M. Torres
Publisher: name: ASC 2010 - Theme session A
Year: 2024
Subjects: Ecosystem observation, processes and dynamics

description: No abstracts are to be cited without prior reference to the author.The Argentine hake (Merluccius hubbsi) is one of the most abundant commercial species in the Patagonian–Malvinas shelf area. In this work, we propose a predictive model of abundance for this species based on a multilayer perceptron (MLP) neural network. The network was developed using fishery data that were collected on board Spanish commercial vessels operating in the area between 1989 and 2006 and environmental data provided by the oceanographic model implemented by MERCATOR Ocean. The MLP output is the cpue (catch per unit of effort; kg h–1), which is used as an abundance index. As input variables we included latitude, longitude, Julian day, temperature, and salinity at three depth levels, sea surface temperature gradient, and moon phase. The whole dataset was split into two independent sets, one to train the network and the other one to validate it. GIS techniques and statistical methods were used to analyse and visualize the data and the results. Model results demonstrate a good fitting between the observed and estimated cpue (r = 0.74 using the validation set). This tool might be useful to implement an operational forecasting system.
Pragmatic versus Hedonic: Determining the Dominant Quality in User Experience for Professional and Leisure Collaboration Tools
Creators: name: Eidloth, Lisa
name: Meiners, Anna-Lena
name: Thomaschewski, Jörg
name: Hinderks, Andreas
Publisher: name: SciTePress
Year: 2023
Subjects: UX
User Experience Factors
Collaboration Tools

description: As collaborative technologies become integral in both professional and leisurely settings, especially during the rise of remote work and digital communities due to COVID-19, understanding the user experience (UX) factors is critical. This study aims to explore the differential importance of these UX factors across professional and leisure contexts, leveraging the widespread use of collaboration tools for an in-depth analysis. The objective of the study is to identify and assess key UX factors in collaboration tools, and to quantify their differential impact in professional and leisure settings. Our research underscores the nuanced role of context in evaluating User Experience (UX) factors’ importance in collaboration tools, with significant variances observed across professional and leisure settings. While some UX factors, including accessibility, clarity, and intuitive use, maintained universal importance across contexts and tools, others—specifically dependability and efficiency—co ntradicted assumptions of being universal "hygiene factors", demonstrating the complexity of UX evaluations. This complexity necessitates a differentiated approach for each context and collaboration tool type, challenging the possibility of a singular evaluation or statement.
title: Investigation of krill transport factors in the Scotia Sea for the fisheries and management application
Creators: name: Kasatkina, Svetlana
name: Shnar, Vladimir
Publisher: name: ASC 2010 - Theme session A
Year: 2024
Subjects: Ecosystem observation, processes and dynamics

description: No abstracts are to be cited without prior reference to the author.Data from acoustic surveys and oceanographic observations were used to estimate characteristics of krill transport across different polygons in the Scotia Sea. Krill flux over the study polygons was considered to be a passive transport by water masses and assessed by the geostrophic transport. Estimates of water velocity and krill biomass transported across the boundaries (outflow and inflow) of these polygons were made. Variabilities of the spatial–temporal distributions of krill biomass and aggregations characteristics associated with multiple processes of krill inflow–outflow over the study areas were traced. It was revealed that krill transport across fishing grounds affects the operational indices of commercial vessels (mean catch per haul, mean catch per hour). The authors discuss the characteristics of krill transport as important information for krill stock management in the Scotia Sea. It was shown that the annual krill biomass transported across traditional fishing grounds could exceed the precautionary catch limit based on the results of a multi-ship acoustic survey and adopted by the Convention on the Conservation of Antarctic Marine Living Resources (CCAMLR) for the Scotia Sea.
Poecilia reticulata Peters 1859
Creators: name: Smith, Welber Senteio
name: Halcsik, Leticia
name: Biagioni, Renata Cassemiro
name: Pinheiro, Lúcio Antônio Stefani
name: Severino Stefani, Marta
Publisher: name: Zenodo
Year: 2021
Subjects: Biodiversity
Taxonomy
Animalia
Chordata
Actinopterygii
Cyprinodontiformes
Poeciliidae
Poecilia
Poecilia reticulata

description: Poecilia reticulata Peters, 1859 Figure 2W Material examined. BRAZIL – São Paulo • Iperó, Ipanema River; 23°25.38′S, 047°28.36′W; 560 m; 08.II. 2016; W.S. Smith and L. Halcsik leg.; hand nets; LEEF 130929 (22 spec., 10.0−28.0 mm). Identification. Body elongated; mouth superior, dentary prognathous; premaxilla and dentary with several small teeth. Longitudinal series with 22–24 scales and transverse series with 8 or 9 scale rows; dorsal fin with 8 or 9 rays, pectoral fin with 13, pelvic with 6 and anal fin with 8 rays. Ground color pale yellow; scales with dark-brown border, conferring reticulate pattern to body; males with several black or colored spots and irregular stripes (Graça and Pavanelli 2007; Ota et al. 2018).
description: Published as part of Smith, Welber Senteio, Halcsik, Leticia, Biagioni, Renata Cassemiro, Pinheiro, Lúcio Antônio Stefani & Severino Stefani, Marta, 2021, An updated list of the ichthyofauna of Ipanema National Forest, São Paulo, Brazil, pp. 827-840 in Check List 17 (3) on page 838, DOI: 10.15560/17.3.827
description: {"references": ["Graca WJ, Pavanelli CS (2007) Peixes da planicie de inundacao do alto rio Parana e areas adjacentes. Eduem, Maringa, Brazil, 241 pp.", "Ota RR, Depra GDC, Graca WJD, Pavanelli CS (2018) Peixes da pla- nicie de inundacao do alto rio Parana e areas adjacentes: revised, annotated and updated. Neotropical Ichthyology 16 (2): 10 - 15."]}
Rational extensions of an oscillator-shaped quantum well potential in a position-dependent mass background
Creators: name: Quesne, C.
Publisher: name: arXiv
Year: 2023
Subjects: subject: Mathematical Physics (math-ph)
subject: Exactly Solvable and Integrable Systems (nlin.SI)
subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: We show that a recently proposed oscillator-shaped quantum well model associated with a position-dependent mass can be solved by applying a point canonical transformation to the constant-mass Schrödinger equation for the Scarf I potential. On using the known rational extension of the latter connected with $X_1$-Jacobi exceptional orthogonal polynomials, we build a rationally-extended position-dependent mass model with the same spectrum as the starting one. Some more involved position-dependent mass models associated with $X_2$-Jacobi exceptional orthogonal polynomials are also considered.
description: 15 pages, 2 figures; minor changes; published version
Old and New Reductions of Dispersionless Toda Hierarchy
Creators: name: Takasaki, Kanehisa
Publisher: name: arXiv
Year: 2012
Subjects: subject: Mathematical Physics (math-ph)
subject: High Energy Physics - Theory (hep-th)
subject: Differential Geometry (math.DG)
subject: Exactly Solvable and Integrable Systems (nlin.SI)
subject: FOS: Physical sciences
subject: FOS: Mathematics
subject: 35Q58, 37K10, 53B50, 53D45

description: This paper is focused on geometric aspects of two particular types of finite-variable reductions in the dispersionless Toda hierarchy. The reductions are formulated in terms of "Landau-Ginzburg potentials" that play the role of reduced Lax functions. One of them is a generalization of Dubrovin and Zhang's trigonometric polynomial. The other is a transcendental function, the logarithm of which resembles the waterbag models of the dispersionless KP hierarchy. They both satisfy a radial version of the Löwner equations. Consistency of these Löwner equations yields a radial version of the Gibbons-Tsarev equations. These equations are used to formulate hodograph solutions of the reduced hierarchy. Geometric aspects of the Gibbons-Tsarev equations are explained in the language of classical differential geometry (Darboux equations, Egorov metrics and Combescure transformations). Flat coordinates of the underlying Egorov metrics are presented.
Sectiliclava Hoffer 1957
Creators: name: Noyes, John Stuart
Publisher: name: Zenodo
Year: 2023
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hymenoptera
Encyrtidae
Sectiliclava

description: Key to Costa Rican species of Sectiliclava
(Females and males)
1. Clava 3-segmented (e.g. Figs 1428, 1437) (females)..................................................... 2
- Clava unsegmented (e.g. Figs 1433, 1464) (males)....................................................... 8
description: Published as part of Noyes, John Stuart, 2023, ENCYRTIDAE OF COSTA RICA (HYMENOPTERA: CHALCIDOIDEA), 4 Subfamily Encyrtinae: tribes Arrhenophagini, Habrolepidini, Cerapterocerini, Cheiloneurini, Trechnitini, Cercobelini, Polaszekiini, Protyndarichoidini, Gahaniellini and Syrphophagini (part), mainly primary parasitoids and hyperparasitoids of Coccoidea and Psylloidea (Hemiptera), pp. 1-921 in Taxonomic Monographs on Neotropical Hymenoptera (Oxford, England) (Oxford, England) 2 (11) on page 556, DOI: 10.5281/zenodo.8074943
Characterization of the major antimicrobial components of the Chilean tinamou (Nothoprocta perdicaria) egg white
Creators: name: Varon, Orly
Publisher: name: University of British Columbia
Year: 2012

description: Chilean tinamou (Nothoprocta perdicaria) egg white was characterized and compared to chicken (Gallus gallus) and emu (Dromaius novaehollandiae) egg whites for composition and antimicrobial components. Tinamou and chicken appeared more similar in terms of protein, sialic acid, ash, and iron content than tinamou and emu, even though phylogenetic analysis places tinamous within the ratites. Egg white proteins were separated by anion–exchange Fast Protein Liquid Chromatography, followed by SDS–PAGE. Tinamou ovotransferrin, ovomucoid, and lysozyme C were identified by peptide mass fingerprinting of SDS-PAGE bands. Similar sized ovotransferrins were present in all egg whites species, however higher quantities were observed for ratites. It is possible that ovotransferrin has an essential antimicrobial function and therefore its presence is conserved among distinct species. The antimicrobial activity of tinamou and chicken ovotransferrins against two food related pathogens, Escherichia coli O157:H7 and Staphylococcus aureus COL was bicarbonate, concentration, and avian species dependent, as evaluated by turbidly and viability assays. Native ovotransferrins were the most effective against E. coli O157:H7, followed by apo and holo forms. Native ovotransferrins exhibited a significant bactericidal activity at a concentration of 10 mg/ml with bicarbonate. In the presence of bicarbonate, chicken apo and holo ovotransferrins were more bacteriostatic than tinamou ovotransferrins. Additionally, there was no significant difference in the antimicrobial activity of apo and holo ovotransferrins applied at 5 and 10 mg/ml. Holo ovotransferrins exhibited moderate antimicrobial activity, only in the presence of bicarbonate; therefore it is possible that bicarbonate contributes to the antimicrobial activity of ovotransferrin by a mechanism other than a bridging ligand between ovotransferrin and iron. Native chicken and tinamou ovotransferrins at 10 mg/ml were bactericidal against S. aureus COL, whereas tinamou ovotransferrin was more bacteriostatic. In conclusion, tinamou ovotransferrin combined with bicarbonate was found to be bactericidal against two foodborne pathogens. In the absence of bicarbonate, tinamou ovotransferrins exhibited minor bacteriostatic activity, while chicken ovotransferrin was not effective. It is possible that tinamou ovotransferrin possesses different amino acid sequences from the chicken protein that form unique antimicrobial motifs; therefore it should be further investigated as a natural antimicrobial agent for use in food matrices or food preparation surfaces.
Editer des ressources éducatives libres avec LiaScript
Creators: name: Belvèze, Damien
Publisher: name: Zenodo
Year: 2025
Subjects: Open Educational Resources
LiaScript

description:  

contexte :

Ce support a été conçu dans le cadre du Stretching NumériqueIl a été présenté le 26 mars 2025

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réutilisation

Il a été conçu comme une ressource libre : CC-by 4.0 Damien Belvèze
All Transients, All the Time: Real-Time Radio Transient Detection with Interferometric Closure Quantities
Creators: name: Law, Casey J.
name: Bower, Geoffrey C.
Publisher: name: arXiv
Year: 2011
Subjects: subject: Instrumentation and Methods for Astrophysics (astro-ph.IM)
subject: FOS: Physical sciences

description: We demonstrate a new technique for detecting radio transients based on interferometric closure quantities. The technique uses the bispectrum, the product of visibilities around a closed-loop of baselines of an interferometer. The bispectrum is calibration independent, resistant to interference, and computationally efficient, so it can be built into correlators for real-time transient detection. Our technique could find celestial transients anywhere in the field of view and localize them to arcsecond precision. At the Karl G. Jansky Very Large Array (VLA), such a system would have a high survey speed and a 5-sigma sensitivity of 38 mJy on 10 ms timescales with 1 GHz of bandwidth. The ability to localize dispersed millisecond pulses to arcsecond precision in large volumes of interferometer data has several unique science applications. Localizing individual pulses from Galactic pulsars will help find X-ray counterparts that define their physical properties, while finding host galaxies of extragalactic transients will measure the electron density of the intergalactic medium with a single dispersed pulse. Exoplanets and active stars have distinct millisecond variability that can be used to identify them and probe their magnetospheres. We use millisecond time scale visibilities from the Allen Telescope Array (ATA) and VLA to show that the bispectrum can detect dispersed pulses and reject local interference. The computational and data efficiency of the bispectrum will help find transients on a range of time scales with next-generation radio interferometers.
description: Accepted to ApJ. 8 pages, 5 figures, 2 tables. Revised to include discussion of non-Gaussian statistics of technique
Amorphophallus hottae Bogner & Hett.
Creators: name: Wong, Sin Yeng
name: Joling, Jyloerica
Publisher: name: Zenodo
Year: 2021
Subjects: Biodiversity
Taxonomy
Plantae
Tracheophyta
Liliopsida
Alismatales
Araceae
Amorphophallus
Amorphophallus hottae

description: Amorphophallus hottae Bogner & Hett. Figure 3A Material examined. MALAYSIA – Pedalaman • Tenom, along Sungai Malatut, about 15 km north of Tenom; 300–450 m elev.; Dec. 22, 1968; Kokawa & Hotta 2527 (holo KYO, iso K). Identification. Amorphophallus hottae is distinctive for its narrow spathe combined and its long, excerted, thin spadix (Bogner and Hetterscheid 1992). Distribution and ecology. Widely distributed in Tenom, Ranau, and Crocker Range National Park, Sabah. Limestone forest; grows in pockets of limestone.
description: Published as part of Wong, Sin Yeng & Joling, Jyloerica, 2021, Checklist of aroids (Alismatales, Araceae) from Sabah (Malaysian Borneo), pp. 931-974 in Check List 17 (3) on page 943, DOI: 10.15560/17.3.931
description: {"references": ["Bogner J, Hetterscheid WLA (1992) Notes on the genus Amorphophallus (Araceae) 1. Three new species from tropical Asia. Blumea 36: 467 - 475."]}
Amorphophallus rugosus Hett.
Creators: name: Wong, Sin Yeng
name: Joling, Jyloerica
Publisher: name: Zenodo
Year: 2021
Subjects: Biodiversity
Taxonomy
Plantae
Tracheophyta
Liliopsida
Alismatales
Araceae
Amorphophallus
Amorphophallus rugosus

description: Amorphophallus rugosus Hett. & A.L.Lamb Figure 3C Material examined. MALAYSIA – Pedalaman • Tambunan / Keningan District-boundary, Ulu Apin Apin, in colluvial soil, on slope of sanstone ridge, cool shaded habitat; ca. 700 m elev.; i-1993; Lamb & Surat ALFS 625 (holo L). Identification. Amorphophallus rugosus is morphologically similar to A. costatus but can be differentiated by the much longer peduncle and larger proportions in general (Hetterscheid 1994). Distribution and ecology. Endemic to Sabah. Known only from the type collection from Ulu Apin Apin, Tambunan-Keningau. Amorphophallus rugosus can be found growing in traditional orchards, rubber farms, secondary and mixed dipterocarp forest. In colluvial soil, on slope of sandstone ridge, cool shaded habitat, ca. 700 m. elev.
description: Published as part of Wong, Sin Yeng & Joling, Jyloerica, 2021, Checklist of aroids (Alismatales, Araceae) from Sabah (Malaysian Borneo), pp. 931-974 in Check List 17 (3) on page 945, DOI: 10.15560/17.3.931
description: {"references": ["Hetterscheid WLA (1994) Notes on the genus Amorphophallus (Araceae) 2: new species from tropical Asia. Blumea 39: 237 - 281."]}
Characterization of addressability by simultaneous randomized benchmarking
Creators: name: Gambetta, Jay M.
name: Corcoles, A. D.
name: Merkel, S. T.
name: Johnson, B. R.
name: Smolin, John A.
name: Chow, Jerry M.
name: Ryan, Colm A.
name: Rigetti, Chad
name: Poletto, S.
name: Ohki, Thomas A.
name: Ketchen, Mark B.
name: Steffen, M.
Publisher: name: arXiv
Year: 2012
Subjects: subject: Quantum Physics (quant-ph)
subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: Superconductivity (cond-mat.supr-con)
subject: FOS: Physical sciences

description: The control and handling of errors arising from cross-talk and unwanted interactions in multi-qubit systems is an important issue in quantum information processing architectures. We introduce a benchmarking protocol that provides information about the amount of addressability present in the system and implement it on coupled superconducting qubits. The protocol consists of randomized benchmarking each qubit individually and then simultaneously, and the amount of addressability is related to the difference of the average gate fidelities of those experiments. We present the results on two similar samples with different amounts of cross-talk and unwanted interactions, which agree with predictions based on simple models for the amount of residual coupling.
description: 5 pages, 4 figures
title: Influence of mesoscale oceanographic structures on larval distribution and survival in jack mackerek (Trachurus murphyi) off Central Chile
Creators: name: Vásquez, Sebastián
name: Correa-Ramírez, Marco
name: Sepúlveda, Aquiles
Publisher: name: ASC 2010 - Theme session A
Year: 2024
Subjects: Ecosystem observation, processes and dynamics

description: No abstracts are to be cited without prior reference to the author.The jack mackerel, Trachurus murphy (Nichols), is a medium-sized pelagic fish that has a wide distribution in the southeast Pacific Ocean and constitutes the most important pelagic fishery in Chile. The jack mackerel population structure includes an extensive dispersion towards the oceanic zone off Chile, where its reproduction occurs during spring. The spatial distribution of jack mackerel larvae during the main spawning season between 2003 and 2005 was addressed through several surveys at 790 plankton stations covering ca. 350 000 square nautical miles. Large numbers of larvae (individuals between 1.7 and 14.9 mm in length) were commonly found up to 1000 nautical miles off central Chile associated with the Subtropical Convergence Zone (STCZ), where strong oceanic mesoscale eddies and meandering currents are typical features during spring. The otolith microstructure shows a significant positive relationship between larval age and distance northward, as well as a relevant association between survival of larvae and mesoscale structures. The eddy definition by the Okubo–Weiss parameter shows that mesoscale oceanographic features have a strong influence on the horizontal distributions of fish larvae and could be providing physical mechanisms that may facilitate the regional self-sustaining of the jack mackerel population off Chile.
Amorphophallus tinekeae Hett.
Creators: name: Wong, Sin Yeng
name: Joling, Jyloerica
Publisher: name: Zenodo
Year: 2021
Subjects: Biodiversity
Taxonomy
Plantae
Tracheophyta
Liliopsida
Alismatales
Araceae
Amorphophallus
Amorphophallus tinekeae

description: Amorphophallus tinekeae Hett. & A.Vogel Figure 3D Material examined. MALAYSIA – Location unknown; cult. in Leiden Botanical Garden, original collection A. Vogel 950012; 5 April 1997; Hetterscheid H.A.M. 477 (holo L, spirit collection). Identification. Amorphophallus tinekeae is a member of a group of exclusively Bornean species and most closely resembles A. borneensis Engl. & Gehrm., from which it differs by having a consistently short peduncle, strongly zygomorphic stigmas, and a rather narrow appendix (Hetterscheid and van der Ham 2001). Distribution and ecology. Endemic to Sabah. Known from the type locality in Gomantong Caves on karst limestone.
description: Published as part of Wong, Sin Yeng & Joling, Jyloerica, 2021, Checklist of aroids (Alismatales, Araceae) from Sabah (Malaysian Borneo), pp. 931-974 in Check List 17 (3) on page 945, DOI: 10.15560/17.3.931
description: {"references": ["Hetterscheid WLA, van der Ham WJM (2001) Notes on the genus Amorphophallus (Araceae) - 11: New and absolete species from East Malaysia and continental Southeast Asia. Blumea 46: 253 - 282."]}
Non-equilibrium molecular dynamics of steady-state fluid transport through a 2D membrane driven by a concentration gradient
Creators: name: Rankin, Daniel J.
name: Huang, David M.
Publisher: name: arXiv
Year: 2023
Subjects: subject: Soft Condensed Matter (cond-mat.soft)
subject: Statistical Mechanics (cond-mat.stat-mech)
subject: Fluid Dynamics (physics.flu-dyn)
subject: FOS: Physical sciences

description: We use a novel non-equilibrium algorithm to simulate steady-state fluid transport through a two-dimensional (2D) membrane due to a concentration gradient by molecular dynamics (MD) for the first time. We confirm that, as required by the Onsager reciprocal relations in the linear-response regime, the solution flux obtained using this algorithm agrees with the excess solute flux obtained from an established non-equilibrium MD algorithm for pressure-driven flow. In addition, we show that the concentration-gradient solution flux in this regime is quantified far more efficiently by explicitly applying a transmembrane concentration difference using our algorithm than by applying Onsager reciprocity to pressure-driven flow. The simulated fluid fluxes are captured with reasonable quantitative accuracy by our previously derived continuum theory of concentration-gradient-driven fluid transport through a 2D membrane [J. Chem. Phys. 151, 044705 (2019)] for a wide range of solution and membrane parameters even though the simulated pore sizes are only several times the size of the fluid particles. The simulations deviate from the theory especially for strong solute--membrane interactions relative to the thermal energy, for which the theoretical approximations break down. Our findings will be beneficial for molecular-level understanding of fluid transport driven by concentration gradients through membranes made from 2D materials, which have diverse applications in energy harvesting, molecular separations, and biosensing.
Homalomena kinabaluensis Furtado
Creators: name: Wong, Sin Yeng
name: Joling, Jyloerica
Publisher: name: Zenodo
Year: 2021
Subjects: Biodiversity
Taxonomy
Plantae
Tracheophyta
Liliopsida
Alismatales
Araceae
Homalomena
Homalomena kinabaluensis

description: Homalomena kinabaluensis Furtado Material examined. MALAYSIA – Kudat • Pitas, Paitan, Hutan Simpan Paitan; 06°42′30″N, 117°9′30″E; 14 May 1987; George & Amin K., SAN 121273 (SAN) – Sandakan • Tongod, Imbak; 05°10′29′′N, 117°09′13′′E; 213.36 m elev.; 14 June 2000; SAN 142898 (SAN). Identification. Homalomena kinabaluensis is a high-altitude ultrabasic-associated species and is unusual in the genus by having the spathe and peduncle deep purple and is one of rather few ultrabasic-obligated aroids described to date (Kartini et al. 2015a). Distribution and ecology. Endemic to Sabah. High-elevation, ultrabasic-obligated.
description: Published as part of Wong, Sin Yeng & Joling, Jyloerica, 2021, Checklist of aroids (Alismatales, Araceae) from Sabah (Malaysian Borneo), pp. 931-974 in Check List 17 (3) on page 951, DOI: 10.15560/17.3.931
description: {"references": ["Kartini S, Boyce PC, Wong SY (2015 a) Studies on Homalomeneae (Araceae) of Borneo XIX: Three new species of geologically obli- gated Homalomena from Sabah, Malaysian Borneo. Willdenowia 45: 419 - 427."]}
Identifying differentially expressed transcripts from RNA-seq data with biological variation
Creators: name: Glaus, Peter
name: Honkela, Antti
name: Rattray, Magnus
Publisher: name: arXiv
Year: 2011
Subjects: subject: Genomics (q-bio.GN)
subject: Applications (stat.AP)
subject: FOS: Biological sciences
subject: FOS: Computer and information sciences

description: Motivation: High-throughput sequencing enables expression analysis at the level of individual transcripts. The analysis of transcriptome expression levels and differential expression estimation requires a probabilistic approach to properly account for ambiguity caused by shared exons and finite read sampling as well as the intrinsic biological variance of transcript expression. Results: We present BitSeq (Bayesian Inference of Transcripts from Sequencing data), a Bayesian approach for estimation of transcript expression level from RNA-seq experiments. Inferred relative expression is represented by Markov chain Monte Carlo (MCMC) samples from the posterior probability distribution of a generative model of the read data. We propose a novel method for differential expression analysis across replicates which propagates uncertainty from the sample-level model while modelling biological variance using an expression-level-dependent prior. We demonstrate the advantages of our method using simulated data as well as an RNA-seq dataset with technical and biological replication for both studied conditions. Availability: The implementation of the transcriptome expression estimation and differential expression analysis, BitSeq, has been written in C++.
description: 12 pages, 6 figures in main text; 11 pages, 5 figures in supplementary information (included in the same file)
A 2% Distance to z = 0.35 by Reconstructing Baryon Acoustic Oscillations - III : Cosmological Measurements and Interpretation
Creators: name: Mehta, Kushal T.
name: Cuesta, Antonio J.
name: Xu, Xiaoying
name: Eisenstein, Daniel J.
name: Padmanabhan, Nikhil
Publisher: name: arXiv
Year: 2012
Subjects: subject: Cosmology and Nongalactic Astrophysics (astro-ph.CO)
subject: FOS: Physical sciences

description: We use the 2% distance measurement from our reconstructed baryon acoustic oscillations (BAOs) signature using the Sloan Digital Sky Survey (SDSS) Data Release 7 (DR7) Luminous Red Galaxies (LRGs) from Padmanabhan et al. (2012) and Xu et al. (2012) combined with cosmic microwave background (CMB) data from Wilkinson Microwave Anisotropy Probe (WMAP7) to measure parameters for various cosmological models. We find a 1.7% measurement of H_0 = 69.8 +/- 1.2 km/s/Mpc and a 5.0% measurement of Omega_m = 0.280 +/- 0.014 for a flat Universe with a cosmological constant. These measurements of H_0 and Omega_m are robust against a range of underlying models for the expansion history. We measure the dark energy equation of state parameter w = -0.97 +/- 0.17, which is consistent with a cosmological constant. If curvature is allowed to vary, we find that the Universe is consistent with a flat geometry (Omega_K = -0.004 +/- 0.005). We also use a combination of the 6 Degree Field Galaxy Survey BAO data, WiggleZ Dark Energy Survey data, Type Ia supernovae (SN) data, and a local measurement of the Hubble constant to explore cosmological models with more parameters. Finally, we explore the effect of varying the energy density of relativistic particles on the measurement of H_0.
description: 13 pages, 14 figures, MNRAS submitted. This is the third of a series of three papers. We found a bug in the publicly available code that implements w_0 and w_a in CAMB and CosmoMC. The sense of the bug was to alter the clustering of dark energy. The bug has now been fixed and we have rerun all chains that include w!=-1. The results change by less than 1 sigma
title: Site selection for stock replenishment using a hydrodynamic model: Example of the Pacific oyster Crassostrea gigas culture in the Pertuis Charentais (France)
Creators: name: Bernard, I.
name: Le Moine, O.
name: Stanisière, J.-Y.
name: Pouvreau, S.
name: Goulletquer, P.
name: Dumas, F.
Publisher: name: ASC 2010 - Theme session A
Year: 2024
Subjects: Ecosystem observation, processes and dynamics

description: No abstracts are to be cited without prior reference to the author.The critical issue for oyster farmers in the Pertuis Charentais region of France is to obtain a sufficient spat supply on a yearly basis in areas dedicated to spat collecting to sustain oyster production. To address this practical question we searched for the main hydrodynamic factors driving spatfall abundance using a hydrodynamic model. Five hydrodynamic-related factors were included in the simulation: spawning time, pelagic larval durations, wind, broodstock location, and spat collecting location. The main result is that ”broodstock location” is the most important factor that impacts larval abundance above spat collection areas at the end of larval life. Northern beds supply spat areas located in the southern areas. This implies that the most important spatfall area in the mouth of the Charente River may be sustained by wild oysters, for which stocks are unknown. The importance of broodstock location implies an improved coordination between policy of eradication of wild oyster beds, aiming to increase productivity, and the policy of replenishment to improve the spatfall level. Moreover, it should be of concern when considering the development of farming of triploid oysters, which do not contribute to reproductive effort. Based upon those results, wild oyster stock assessment is a necessary step for determining where the replenishment should be carried out. The large variability of the contribution of oyster beds, however, seems to indicate that replenishment in well-chosen areas may be successful in improving spat supply.