cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Alignments and beyond: A versatile swarm-based framework for de novo amplicon clustering
Creators: name: Müller, Robert
Publisher: name: Universität Bielefeld
Year: 2022
Subjects: subject: 570

description: High-throughput sequencing and the resulting massive amplicon data sets have become an essential element of research in the life sciences. While they provide the basis for new insights in various disciplines, the continuously increasing size of the data sets challenges the involved bioinformatics pipelines. Clustering sequences to, e.g., group those from related organisms is a common step in such processing pipelines but it is also a potential bottleneck preventing the full utilisation of the massive data sets. Over the years, various approaches have been developed to facilitate the efficient clustering of large data sets at high quality. Despite the available variety of methods, many popular tools are alignment-based and employ a de novo clustering approach with a fixed global clustering threshold. More recently, Swarm introduced an alternative de novo clustering method, which uses a local clustering threshold in order to iteratively extend the clusters until they reach their natural limit. First evaluations of its performance and clustering quality led to promising results but, similar to most other tools, it is alignment-based and some of the underlying procedures are limited in their applicability.

In this thesis, we take up the iterative clustering strategy of Swarm and extend it into a flexible framework to overcome some of its limitations and to move beyond alignment-based clustering methods. The framework is implemented in our de novo clustering tool GeFaST, which generalises the fastidious refinement step of Swarm and allows us to show that the refinement can improve the clustering quality in a broader range of scenarios. GeFaST also decouples the iterative strategy from a particular notion of distance used to compare amplicons. This enables us to extend iterative clustering to alignment-free methods based on feature representations from which the distance between amplicons is computed. We demonstrate that alignment-free clustering can attain a similar clustering quality or performance (but currently not both) compared to alignment-based clustering. We also combine the iterative strategy with quality-aware methods such as quality-weighted alignments in order to address the issue of sequencing errors which can impair the clustering process and show that the clustering quality can be improved in this way. Furthermore, we take advantage of the modular structure of GeFaST and explore possible trade-offs between runtime and memory consumption with the help of space-efficient data structures.

Overall, we broaden the applicability of the iterative clustering strategy and show that it can be a viable and, in some cases, preferable alternative to other de novo clustering methods. Moreover, the presented alignment-free and quality-aware methods are not specific to the iterative strategy and, thus, might even provide new impulses to de novo clustering in general.
Thermal Emission in the Southwest Clump of VY CMa
Creators: name: Gordon, Michael S.
name: Jones, Terry J.
name: Humphreys, Roberta M.
name: Ertel, Steve
name: Hinz, Philip M.
name: Hoffmann, William F.
name: Stone, Jordan
name: Spalding, Eckhart
name: Vaz, Amali
Publisher: name: arXiv
Year: 2018
Subjects: subject: Solar and Stellar Astrophysics (astro-ph.SR)
subject: Astrophysics of Galaxies (astro-ph.GA)
subject: FOS: Physical sciences

description: We present high spatial resolution LBTI/NOMIC $9-12$ $μm$ images of VY CMa and its massive outflow feature, the Southwest (SW) Clump. Combined with high-resolution imaging from HST ($0.4-1$ $μm$) and LBT/LMIRCam ($1-5$ $μm$), we isolate the spectral energy distribution (SED) of the clump from the star itself. Using radiative-transfer code DUSTY, we model both the scattered light from VY CMa and the thermal emission from the dust in the clump to estimate the optical depth, mass, and temperature of the SW Clump. The SW Clump is optically thick at 8.9 $μm$ with a brightness temperature of $\sim$200 K. With a dust chemistry of equal parts silicates and metallic iron, as well as assumptions on grain size distribution, we estimate a dust mass of $5.4\times10^{-5}\,M_\odot$. For a gas--to--dust ratio of 100, this implies a total mass of $5.4\times10^{-3}\,M_\odot$. Compared to the typical mass-loss rate of VY CMa, the SW Clump represents an extreme, localized mass-loss event from $\lesssim300$ years ago.
description: Published in AJ, February 2019. 14 pages, 5 figures, 2 tables
Additional file 5: of Effectiveness of text messaging interventions on prevention, detection, treatment, and knowledge outcomes for sexually transmitted infections (STIs)/HIV: a systematic review and meta-analysis
Creators: name: Taylor, Darlene
name: Lunny, Carole
name: LoliÄ, Petra
name: Warje, Orion
name: Geldman, Jasmina
name: Wong, Tom
name: Gilbert, Mark
name: Lester, Richard
name: Ogilvie, Gina
Publisher: name: figshare
Year: 2019
Subjects: subject: Medicine
subject: Biotechnology
subject: Sociology
subject: FOS: Sociology
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Cancer
subject: Science Policy
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: 60506 Virology
subject: FOS: Biological sciences
subject: Computational Biology

description: Table of SMS Messages. (DOCX 21 kb)
MOESM5 of Enhancement of tanshinone production in Salvia miltiorrhiza hairy root cultures by metabolic engineering
Creators: name: Wei, Tao
name: Gao, Yonghong
name: Deng, Kejun
name: Zhang, Lipeng
name: Yang, Meiling
name: Liu, Xiaopei
name: Qi, Caiyan
name: Wang, Chunguo
name: Song, Wenqin
name: Zhang, Yong
name: Chen, Chengbin
Publisher: name: figshare
Year: 2019
Subjects: subject: Space Science
subject: Molecular Biology
subject: Physiology
subject: FOS: Biological sciences
subject: Pharmacology
subject: Biotechnology
subject: Ecology
subject: Developmental Biology
subject: Plant Biology

description: Additional file 5: Figure S5. Morphology of transgenic hairy root cultures on day 45 after elicitor treatments.
MOESM6 of Enhancement of tanshinone production in Salvia miltiorrhiza hairy root cultures by metabolic engineering
Creators: name: Wei, Tao
name: Gao, Yonghong
name: Deng, Kejun
name: Zhang, Lipeng
name: Yang, Meiling
name: Liu, Xiaopei
name: Qi, Caiyan
name: Wang, Chunguo
name: Song, Wenqin
name: Zhang, Yong
name: Chen, Chengbin
Publisher: name: figshare
Year: 2019
Subjects: subject: Space Science
subject: Pharmacology
subject: Ecology
subject: FOS: Biological sciences
subject: Biological Sciences not elsewhere classified
subject: Inorganic Chemistry
subject: FOS: Chemical sciences

description: Additional file 6: Table S1. Oligonucleotide primers used in this study.
Additional file 1: of Family-based association study of ZNF804A polymorphisms and autism in a Han Chinese population
Creators: name: Wang, Ziqi
name: Zhang, Tian
name: Liu, Jing
name: Wang, Han
name: Lu, Tianlan
name: Jia, Meixiang
name: Zhang, Dai
name: Wang, Lifang
name: Li, Jun
Publisher: name: figshare
Year: 2019
Subjects: subject: Space Science
subject: Medicine
subject: Environmental Sciences not elsewhere classified
subject: Sociology
subject: FOS: Sociology
subject: Biological Sciences not elsewhere classified

description: Table S1. Functional annotation of rs7603001 and rs1344706 in ZNF804A using HaploReg. Figure S1. Linkage disequilibrium block constructed from rs7603001 and rs1344706 in ZNF804A in different populations. (DOCX 132â kb)
Real-time time-dependent density functional theory using higher order finite element methods
Creators: name: Kanungo, Bikash
name: Gavini, Vikram
Publisher: name: arXiv
Year: 2018
Subjects: subject: Computational Physics (physics.comp-ph)
subject: FOS: Physical sciences

description: We present a computationally efficient approach to solve the time-dependent Kohn-Sham equations in real-time using higher-order finite-element spatial discretization, applicable to both pseudopotential and all-electron calculations. To this end, we develop an a priori mesh adaption technique, based on the semi-discrete (discrete in space but continuous in time) error estimate on the time-dependent Kohn-Sham orbitals, to construct a close to optimal finite-element discretization. Subsequently, we obtain the full-discrete error estimate to guide our choice of the time-step. We employ spectral finite-elements along with Gauss-Legendre-Lobatto quadrature to render the overlap matrix diagonal, simplifying the inversion of the overlap matrix that features in the evaluation of the discrete time-evolution operator. We use the second-order Magnus operator as the time-evolution operator in all our calculations. Furthermore, the action of the discrete Magnus operator, expressed as exponential of a matrix, on the Kohn-Sham orbitals is obtained efficiently through an adaptive Lanczos iteration. We observe close to optimal rates of convergence of the dipole moment with respect to spatial and temporal discretization, for both pseudopotential and all-electron calculations. We demonstrate a staggering 100-fold reduction in the computational time afforded by higher-order finite-elements over linear finite-elements. We present comparative studies, in terms of accuracy and efficiency, of our approach against finite-difference based discretization for pseudopotential calculations, and demonstrate significant computational savings when compared to the finite-difference method. We also demonstrate the competence of higher-order finite-elements for all-electron benchmark systems. Lastly, we observe good parallel scalability of the proposed method on many hundreds of processors.
Additional file 1: of The third-generation EGFR inhibitor AZD9291 overcomes primary resistance by continuously blocking ERK signaling in glioblastoma
Creators: name: Liu, Xuejiao
name: Chen, Xiangyu
name: Shi, Lin
name: Shan, Qianqian
name: Cao, Qiyu
name: Yue, Chenglong
name: Li, Huan
name: Li, Shengsheng
name: Wang, Jie
name: Gao, Shangfeng
name: Niu, Mingshan
name: Yu, Rutong
Publisher: name: figshare
Year: 2019
Subjects: subject: Biophysics
subject: Biochemistry
subject: Space Science
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Molecular Biology
subject: Pharmacology
subject: Biotechnology
subject: Chemical Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Developmental Biology
subject: Cancer
subject: Hematology
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology

description: Figure S1. AZD9291 pretreatment inhibited GBM cell migration. The cells were pretreated with AZD9291 for 24â h, and then the treated cells were used to conduct transwell migration assay (no Matrigel). Representative images of migratory abilities of AZD929-treated U251cells (A) and U87 cells (B). Figure S2. AZD9291 pretreatment inhibited GBM cell invasion. The cells were pretreated with AZD9291 for 24â h, and then the treated cells were used to conduct transwell invasion assays (Matrigel was added). Representative images of invasive abilities of AZD929-treated U251cells (A) and U87 cells (B). Figure S3. Combined with SCH772984, another ERK inhibitor significantly increases the sensitivity of GBM cells to AZD9291. (A and B) Measurement of cell proliferation after treating with AZD9291 or SCH772984 alone or their combinations by EdU incorporation assay. (C-F) U87 and U251 cells were incubated with AZD9291 or SCH772984 alone or their combinations for 30â h. Cell invasive abilities were evaluated by transwell invasion assay. (DOCX 3630 kb)
Marcatili's Lossless Tapers and Bends: an Apparent Paradox and its Solution
Creators: name: Capobianco, Antonio-D.
name: Corrias, Stefano
name: Curtarolo, Stefano
name: Someda, Carlo G.
Publisher: name: arXiv
Year: 1999
Subjects: subject: Optics (physics.optics)
subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: Numerical results based on an extended BPM algorithm indicate that, in Marcatili's lossless tapers and bends, through-flowing waves are drastically different from standing waves. The source of this surprising behavior is inherent in Maxwell's equations. Indeed, if the magnetic field is correctly derived from the electric one, and the Poynting vector is calculated, then the analytical results are reconciled with the numerical ones. Similar considerations are shown to apply to Gaussian beams in free space.
description: 4 pages, figures included
title: Candidature projet De la connaissance de Soi 2018
Creators: name: CNE (UMR 8562)
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2019

description: Projet De la connaissance de Soi à l'employabilité des étudiants méditerranéens Des valeurs et pratiques culturelles des étudiants à I'emolovabilité, porté par Louis Basco (Centre Norbert Elias), en 2018
Origin of Spin Incommensurability in Hole-doped S=1 $\rm Y_{2-x}Ca_x Ba Ni O_5$ Chains
Creators: name: Malvezzi, Andre Luiz
name: Dagotto, Elbio
Publisher: name: arXiv
Year: 2000
Subjects: subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: FOS: Physical sciences

description: Spin incommensurability has been recently experimentally discovered in the hole-doped Ni-oxide chain compound $\rm Y_{2-x}Ca_x Ba Ni O_5$ (G. Xu {\it al.}, Science {\bf 289}, 419 (2000)). Here a two orbital model for this material is studied using computational techniques. Spin IC is observed in a wide range of densities and couplings. The phenomenon originates in antiferromagnetic correlations ``across holes'' dynamically generated to improve hole movement, as it occurs in the one-dimensional Hubbard model and in recent studies of the two-dimensional extended t-J model. The close proximity of ferromagnetic and phase-separated states in parameter space are also discussed.
description: RevTex, 4 pages, 4 figures (eps)
KIR in Allogeneic Hematopoietic Stem Cell Transplantation: Need for a Unified Paradigm for Donor Selection
Creators: name: Dhuyser, Adèle
name: Aarnink, Alice
name: Pérès, Michaël
name: Jayaraman, Jyothi
name: Nemat-Gorgani, Neda
name: Rubio, Marie Thérèse
name: Trowsdale, John
name: Traherne, James
Publisher: name: Apollo - University of Cambridge Repository
Year: 2022
Subjects: subject: Immunology
subject: FOS: Clinical medicine
subject: killer immunoglobulin-like receptors (KIR)
subject: allogeneic hematopoietic stem cell transplantation (aHSCT)
subject: Donor selection
subject: alloreactivity potential
subject: predictive model

description: Allogeneic hematopoietic stem cell transplantation (aHSCT) is a lifesaving therapy for hematological malignancies. For years, a fully matched HLA donor was a requisite for the procedure. However, new immunosuppressive strategies have enabled the recruitment of viable alternative donors, particularly haploidentical donors. Over 95% of patients have at least two potential haploidentical donors available to them. To identify the best haploidentical donor, the assessment of new immunogenetic criteria could help. To this end, the clinical benefit of KIR genotyping in aHSCT has been widely studied but remains contentious. This review aims to evaluate the importance of KIR-driven NK cell alloreactivity in the context of aHSCT and explain potential reasons for the discrepancies in the literature. Here, through a non-systematic review, we highlight how the studies in this field and their respective predictive models or scoring strategies could be conceptually opposed, explaining why the role of NK cells remains unclear in aHCST outcomes. We evaluate the limitations of each published prediction model and describe how every scoring strategy to date only partly delivers the requirements for optimally effective NK cells in aHSCT. Finally, we propose approaches toward finding the optimal use of KIR genotyping in aHSCT for a unified criterion for donor selection.
What does a change in the quark condensate say about restoration of chiral symmetry in matter?
Creators: name: Birse, Michael C.
Publisher: name: arXiv
Year: 1996
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: Nuclear Theory (nucl-th)
subject: FOS: Physical sciences

description: The contribution of nucleons to the quark condensate in nuclear matter includes a piece of first order in $m_π$, arising from the contribution of low-momentum virtual pions to the $πN$ sigma commutator. Chiral symmetry requires that no term of this order appears in the $NN$ interaction. The mass of a nucleon in matter thus cannot depend in any simple way on the quark condensate alone. More generally, pieces of the quark condensate that arise from low-momentum pions should not be associated with partial restoration of chiral symmetry.
description: 9 pages (RevTeX). Definition of effective mass changed; numerical value of leading nonanalytic term corrected, along with various misprints
Determination of the stress state of a layer with a cylindrical cavity located on an elastic base and specified boundary conditions in the form of stresses
Creators: name: Miroshnikov Vitaly Yuryevich
Publisher: name: Colloquium-journal
Year: 2019
Subjects: cylindrical cavity in a layer
generalized Fourier method
Lame equation
elastic half-space

description: The spatial problem of the theory of elasticity is solved for a layer with a longitudinal circular cylindrical cavity. The layer is located on an elastic base in the form of half-space. The layer and elastic base are homogeneous isotropic materials that are different from each other. At the cavity and at the upper boundary of the layer are specified stresses. Applying the generalized Fourier method with respect to the system of Lame equations and satisfying the boundary conditions, we obtain infinite systems of linear algebraic equations that are solved by the reduction method. As a result, displacements and stresses were obtained at various points of the elastic body. A numerical analysis of the stress-strain state was carried out for a concrete layer that lies on a clay base and has a longitudinal cylindrical cavity.
Instantons, Three-Dimensional Gauge Theory, and the Atiyah-Hitchin Manifold
Creators: name: Dorey, N.
name: Khoze, V. V.
name: Mattis, M. P.
name: Tong, D.
name: Vandoren, S.
Publisher: name: arXiv
Year: 1997
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: We investigate quantum effects on the Coulomb branch of three-dimensional N=4 supersymmetric gauge theory with gauge group SU(2). We calculate perturbative and one-instanton contributions to the Wilsonian effective action using standard weak-coupling methods. Unlike the four-dimensional case, and despite supersymmetry, the contribution of non-zero modes to the instanton measure does not cancel. Our results allow us to fix the weak-coupling boundary conditions for the differential equations which determine the hyper-Kahler metric on the quantum moduli space. We confirm the proposal of Seiberg and Witten that the Coulomb branch is equivalent, as a hyper-Kahler manifold, to the centered moduli space of two BPS monopoles constructed by Atiyah and Hitchin.
description: 37 pages, LaTeX. Typos corrected
Neuropeptide Y is up-regulated and induces antinociception in cancer-induced bone pain
Creators: name: Diaz-delCastillo, Marta
name: Christiansen, Soren H.
name: Appel, Camilla K.
name: Falka, Sarah
name: Woldbye, David P. D.
name: Heegaarda, Anne-Marie
Publisher: name: arXiv
Year: 2018
Subjects: subject: Neurons and Cognition (q-bio.NC)
subject: Tissues and Organs (q-bio.TO)
subject: FOS: Biological sciences

description: Pain remains a major concern in patients suffering from metastatic cancer to the bone and more knowledge of the condition, as well as novel treatment avenues, are called for. Neuropeptide Y (NPY) is a highly conserved peptide that appears to play a central role in nociceptive signaling in inflammatory and neuropathic pain. However, little is known about the peptide in cancer-induced bone pain. Here, we evaluate the role of spinal NPY in the MRMT-1 rat model of cancer-induced bone pain. Our studies revealed an up-regulation of NPY-immunoreactivity in the dorsal horn of cancer-bearing rats 17 days after inoculation, which could be a compensatory antinociceptive response. Consistent with this interpretation, intrathecal administration of NPY to rats with cancer-induced bone pain caused a reduction in nociceptive behaviors that lasted up to 150 min. This effect was diminished by both Y1 (BIBO3304) and Y2 (BIIE0246) receptor antagonists, indicating that both receptors participate in mediating the antinociceptive effect of NPY. Y1 and Y2 receptor binding in the spinal cord was unchanged in the cancer state as compared to sham-operated rats, consistent with the notion that increased NPY results in a net antinociceptive effect in the MRMT-1 model. In conclusion, the data indicate that NPY is involved in the spinal nociceptive signaling of cancer-induced bone pain and could be a new therapeutic target for patients with this condition.
description: 23 pages, 4 figures
Yang-Lee Zeros of the Ising model on Random Graphs of Non Planar Topology
Creators: name: de Albuquerque, Luiz C.
name: Alves, Nelson A.
name: Dalmazi, D.
Publisher: name: arXiv
Year: 1999
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: Statistical Mechanics (cond-mat.stat-mech)
subject: FOS: Physical sciences

description: We obtain in a closed form the 1/N^2 contribution to the free energy of the two Hermitian N\times N random matrix model with non symmetric quartic potential. From this result, we calculate numerically the Yang-Lee zeros of the 2D Ising model on dynamical random graphs with the topology of a torus up to n=16 vertices. They are found to be located on the unit circle on the complex fugacity plane. In order to include contributions of even higher topologies we calculated analytically the nonperturbative (sum over all genus) partition function of the model Z_n = \sum_{h=0}^{\infty} \frac{Z_n^{(h)}}{N^{2h}} for the special cases of N=1,2 and graphs with n\le 20 vertices. Once again the Yang-Lee zeros are shown numerically to lie on the unit circle on the complex fugacity plane. Our results thus generalize previous numerical results on random graphs by going beyond the planar approximation and strongly indicate that there might be a generalization of the Lee-Yang circle theorem for dynamical random graphs.
description: 19 pages, 7 figures ,1 reference and a note added ,To Appear in Nucl.Phys B
André Bourdon
Creators: name: Plouvain, Pierre-Antoine-Samuel-Joseph (1754-1832)
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2017
Subjects: Officier de justice d'Ancien Régime

description: Source: http://www.sudoc.fr/080675700
description: Coverage: Parlement de Flandre
title: ADCO, Deuxième cartulaire ou Grand cartulaire de l'abbaye de Molesme, Cart. 143 (7 H 7), 153 fol, f. 0116v
Creators: name: de la Côte d'Or, Archives départementales
name: Petot, Frédéric
name: Archives Départementales De La Côte-D'Or
name: Petot, Frédérique
name: Projet CBMA
name: CG21/F.PETOT/2009
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2020
Subjects: subject: cartulaire
subject: Corpus Burgundiae Medii Aevi
subject: Chartes de la Bourgogne du Moyen Âge
subject: LaMOP
subject: Laboratoire de Médiévistique Occidentale de Paris

description: Deuxième cartulaire ou Grand cartulaire de l'abbaye de Molesme, Archives départementales de la Côte-d'Or, Cart. 143 (7 H 7), 153 fol, f. 0116v, Numérisation en mode image.
description: Relation: http://www.cbma-project.eu/
description: Bibliographic citation: Deuxième cartulaire ou Grand cartulaire de l'abbaye de Molesme, Archives départementales de la Côte-d'Or, Cart. 143 (7 H 7), 153 fol, f. 0116v, in Projet CBMA - Corpus Burgundiae Medii Aevi [Ressource en ligne], https:// manuscrits.cbma-project.eu/
description: Provenance: https://catalogue.bnf.fr/ark:/12148/cb137389344
description: Provenance: abbaye de Molesme
description: Provenance: http://www.wikidata.org/entity/Q334044
Dual Pairs and Regularization of Kummer Shapes in Resonances
Creators: name: Ohsawa, Tomoki
Publisher: name: arXiv
Year: 2018
Subjects: subject: Classical Analysis and ODEs (math.CA)
subject: Mathematical Physics (math-ph)
subject: Dynamical Systems (math.DS)
subject: Symplectic Geometry (math.SG)
subject: FOS: Mathematics
subject: FOS: Physical sciences
subject: 37J15, 53D17, 53D20, 70K30

description: We present an account of dual pairs and the Kummer shapes for $n:m$ resonances that provides an alternative to Holm and Vizman's work. The advantages of our point of view are that the associated Poisson structure on $\mathfrak{su}(2)^{*}$ is the standard $(+)$-Lie--Poisson bracket independent of the values of $(n,m)$ as well as that the Kummer shape is regularized to become a sphere without any pinches regardless of the values of $(n,m)$. A similar result holds for $n:-m$ resonance with a paraboloid and $\mathfrak{su}(1,1)^{*}$. The result also has a straightforward generalization to multidimensional resonances as well.
description: 14 pages, 1 figure
Additional file 4: of Effectiveness of text messaging interventions on prevention, detection, treatment, and knowledge outcomes for sexually transmitted infections (STIs)/HIV: a systematic review and meta-analysis
Creators: name: Taylor, Darlene
name: Lunny, Carole
name: LoliÄ, Petra
name: Warje, Orion
name: Geldman, Jasmina
name: Wong, Tom
name: Gilbert, Mark
name: Lester, Richard
name: Ogilvie, Gina
Publisher: name: figshare
Year: 2019
Subjects: subject: Medicine
subject: Sociology
subject: FOS: Sociology
subject: Science Policy
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: 60506 Virology
subject: FOS: Biological sciences
subject: Computational Biology

description: Eligibility Criteria. (DOCX 14 kb)
Leucanthemopsis pectinata G. López González & C. E. Jarvis 1984
Creators: name: Jarvis, Charlie
Publisher: name: Linnaean Society of London in association with the Natural History Museum
Year: 2007
Subjects: Biodiversity
Taxonomy
Plantae
Tracheophyta
Magnoliopsida
Asterales
Asteraceae
Leucanthemopsis
Leucanthemopsis pectinata

description: Chrysanthemum pectinatum Linnaeus, Species Plantarum, ed. 2, 2: 1255. 1763.
"Habitat in Hispania, Italia." RCN: 6442.
 Lectotype (López González & Jarvis in Anales Jard. Bot. Madrid 40: 343. 1984): Alströmer 167b , Herb. Linn. No. 1012.18 (LINN).
 Current name:  Leucanthemopsis pectinata  (L.) G. López & C.E. Jarvis (Asteraceae).
description: Published as part of Jarvis, Charlie, 2007, Chapter 7: Linnaean Plant Names and their Types (part C), pp. 370-473 in Order out of Chaos. Linnaean Plant Types and their Types, London :Linnaean Society of London in association with the Natural History Museum on page 414, DOI: 10.5281/zenodo.291971
Chargino Pair Production in $e^+e^-$ Collisions
Creators: name: Choi, S. Y.
name: Djouadi, A.
name: Dreiner, H.
name: Kalinowski, J.
name: Zerwas, P. M.
Publisher: name: arXiv
Year: 1998
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: Charginos $χ_1^\pm$ are expected to be the lightest observable supersymmetric particles in many supersymmetric models. We present a procedure which will allow to determine the chargino mixing angles and, subsequently, the fundamental SUSY parameters $M_2, μ$ and $\tanβ$ by measurements of the total cross section and the spin correlations in $e^+e^-$ annihilation to $χ_1^+ χ_1^-$ chargino pairs.
description: 23 pages (including 9 figures), one Latex plus 7 eps files
Phase-field modeling of two-dimensional solute precipitation/dissolution: Solid fingers and diffusion-limited precipitation
Creators: name: Xu, Zhijie
name: Meakin, Paul
Publisher: name: arXiv
Year: 2018
Subjects: subject: Chemical Physics (physics.chem-ph)
subject: FOS: Physical sciences

description: Two-dimensional dendritic growth due to solute precipitation was simulated using a phase-field model reported earlier [Z. Xu and P. Meakin, J. Chem. Phys. 129, 014705 (2008)]. It was shown that diffusion-limited precipitation due to the chemical reaction at the solid-liquid interface posses similarities with diffusion-limited aggregation (DLA). The diffusion-limited precipitation is attained by setting the chemical reaction rate much larger compared to the solute diffusion to eliminate the effect of the interface growth kinetics. The phase-field simulation results were in reasonable agreement with the analytical solutions. The fractal solid fingers can be formed in the diffusion-limited precipitation and have a fractal dimension measured , close to 1.64, the fractal dimensionality of large square lattice diffusion-limited aggregation (DLA) clusters.
О ПРИНАДЛЕЖНОСТИ ВЫРАЖЕНИЙ КРИТИКИ И НЕОДОБРЕНИЯ К АГРЕССИВНОМУ ДИСКУРСУ
Creators: name: Хильковская А. А.
Publisher: name: Zenodo
Year: 2021

description: ЦЕЛЬ нашего исследования, проводимого на материале современного англоязычного дискурса, – определение статуса коммуникативных стратегий выражения критики и неодобрения и установление типа дискурса, к которому указанные стратегии следует отнести. В данной связи представляется необходимым рассмотреть вопрос о сущности, особенностях и границах агрессивного и конфликтного дискурса. Как объект лингвистического анализа стратегии выражения критики и неодобрения логично рассматривать как принадлежность определенного типа дискурса, с учетом лингво-культурного контекста коммуникации, ситуации, порождающей подобные высказывания, и их возможной интерпретации.
Additional file 5: of Analysis of the distribution of assimilation products and the characteristics of transcriptomes in rice by submergence during the ripening stage
Creators: name: Lee, Hyeon
name: Hwang, Woon
name: Jeong, Jae
name: Ahn, Seung
name: Baek, Jeong
name: Jeong, Han
name: Park, Hong
name: Ku, Bon
name: Yun, Jong
name: Geon Lee
name: Choi, Kyung
Publisher: name: figshare
Year: 2019
Subjects: subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology

description: Figure S3. Gene ontology enrichment analyses of datasets obtained by RNA-Seq. (DOCX 495 kb)
title: ADCO, Cartulaire des Dominicains de Dijon (1286), Cart. 221 (H 53), 170 folios, f. 0291
Creators: name: de la Côte d'Or, Archives départementales
name: Archives Départementales De La Côte-D'Or
name: Petot, Frédérique
name: Projet CBMA
name: CG21/F.PETOT/2012
name: Petot, Frédéric
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2020
Subjects: subject: Corpus Burgundiae Medii Aevi
subject: Chartes de la Bourgogne du Moyen Âge
subject: cartulaire
subject: LaMOP
subject: Laboratoire de Médiévistique Occidentale de Paris

description: Cartulaire des Dominicains de Dijon (1286), Archives départementales de la Côte-d'Or, Cart. 221 (H 53), 170 folios. Numérisation en mode image.
description: Relation: http://www.cbma-project.eu/
description: Bibliographic citation: Cartulaire des Dominicains de Dijon (1286), Archives départementales de la Côte-d'Or, Cart. 221 (H 53), 170 folios, f. 0291, in Projet CBMA - Corpus Burgundiae Medii Aevi [Ressource en ligne], https:// manuscrits.cbma-project.eu/
description: Provenance: https://catalogue.bnf.fr/ark:/12148/cb15250518p
description: Provenance: http://www.idref.fr/02643413X/id
description: Provenance: https://www.geonames.org/6453767
description: Provenance: Dijon
description: Provenance: http://www.wikidata.org/entity/Q7003
Implicit Dual-domain Convolutional Network for Robust Color Image Compression Artifact Reduction
Creators: name: Zheng, Bolun
name: Chen, Yaowu
name: Tian, Xiang
name: Zhou, Fan
name: Liu, Xuesong
Publisher: name: arXiv
Year: 2018
Subjects: subject: Computer Vision and Pattern Recognition (cs.CV)
subject: FOS: Computer and information sciences

description: Several dual-domain convolutional neural network-based methods show outstanding performance in reducing image compression artifacts. However, they suffer from handling color images because the compression processes for gray-scale and color images are completely different. Moreover, these methods train a specific model for each compression quality and require multiple models to achieve different compression qualities. To address these problems, we proposed an implicit dual-domain convolutional network (IDCN) with the pixel position labeling map and the quantization tables as inputs. Specifically, we proposed an extractor-corrector framework-based dual-domain correction unit (DCU) as the basic component to formulate the IDCN. A dense block was introduced to improve the performance of extractor in DRU. The implicit dual-domain translation allows the IDCN to handle color images with the discrete cosine transform (DCT)-domain priors. A flexible version of IDCN (IDCN-f) was developed to handle a wide range of compression qualities. Experiments for both objective and subjective evaluations on benchmark datasets show that IDCN is superior to the state-of-the-art methods and IDCN-f exhibits excellent abilities to handle a wide range of compression qualities with little performance sacrifice and demonstrates great potential for practical applications.
description: accepted by IEEE Transactions on Circuits and Systems for Video Technology(T-CSVT)
Effect of Subphase Ca++ Ions on the Viscoelastic Properties of Langmuir Monolayers
Creators: name: Ghaskadvi, R. S.
name: Carr, Sharon
name: Dennin, Michael
Publisher: name: arXiv
Year: 1999
Subjects: subject: Chemical Physics (physics.chem-ph)
subject: Condensed Matter (cond-mat)
subject: FOS: Physical sciences

description: It is known that the presence of cations like Ca++ or Pb++ in the water subphase alters the pressure-area isotherms for fatty acid monolayers. The corresponding lattice constant changes have been studied using x-ray diffraction. Reflection-absorption spectroscopy has been used to probe the chemical composition of the film. We report on the first measurements of the time evolution of the shear viscosity of arachidic acid monolayers in the presence of Ca++ ions in the subphase. We find that the introduction of Ca++ ions to the water subphase results in an increase of the film's viscosity by at least three orders of magnitude. This increase occurs in three distinct stages. First, there is a rapid change in the viscosity of up to one order of magnitude. This is followed by two periods, with very different time constants, of a relatively slow increase in the viscosity over the next 10 or more hours. The corresponding time constants for this rise decrease as either the subphase pH or Ca++ concentration is increased.
description: 5 figures
Additional file 3: of Effectiveness of text messaging interventions on prevention, detection, treatment, and knowledge outcomes for sexually transmitted infections (STIs)/HIV: a systematic review and meta-analysis
Creators: name: Taylor, Darlene
name: Lunny, Carole
name: LoliÄ, Petra
name: Warje, Orion
name: Geldman, Jasmina
name: Wong, Tom
name: Gilbert, Mark
name: Lester, Richard
name: Ogilvie, Gina
Publisher: name: figshare
Year: 2019
Subjects: subject: Medicine
subject: Biotechnology
subject: Sociology
subject: FOS: Sociology
subject: Cancer
subject: Science Policy
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: 60506 Virology
subject: FOS: Biological sciences
subject: Computational Biology

description: Ovid Search Strategy Phase 2. (DOCX 18 kb)
Tribology for the evaluation of wear and mouthfeel of pharmaceutical tablet coatings
Creators: name: Hofmanova, Justyna
name: Mills, Thomas
name: Batchelor, Hannah
Publisher: name: F1000 Research Limited
Year: 2019

description: The majority of prescribed medicines are oral dosage forms, e.g. tablets. These are often coated with polymers which provide multiple functions – from appealing texture to drug release.

The aim of this research work is to explore potential of oral tribology to evaluate pharmaceutical coatings, specifically (a) coating durability - a quality necessary to achieve taste-masking properties of a tablet, and (b) texture qualities, particularly slipperiness, which is a crucial quality for patients with swallowing difficulties. To achieve it, friction behavior of model HPMC coatings of various viscosity grades was evaluated.
SIMCor. Deliverable 4.5 - SOPs for in-silico analysis of TAVI (IIB, M24)
Creators: name: Stiehm, Michael
name: Borowski, Finja
name: Oldenburg, Jan
name: Lavezzo, Valentina
name: Brüning, Jan
name: Lesage, Raphaëlle
name: Seger, Axel
name: Rizzo, Anna
Publisher: name: Zenodo
Year: 2022

description: This document was developed to provide two standard operating procedures (SOP) on flow field assessment of transcatheter aortic valve implants (TAVI) by means of numerical simulation applying fluid structure interaction (FSI) and particle image velocimetry measurements. The SOPs are designed for SIMCor partners as well as for the scientific community.

The SOP-D4.5.1 is about building a computational model and performing simulations in the field of FSI for TAVI. Where applicable, existing standards and guidance are referenced within this document. Additionally, specific exemplary applications of the general procedure and recommendations are given, using the TAVI use case, which represents a minimally invasive implantation of biological valve prostheses into the aortic root via catheterization.

The SOP-D4.5.2 provides recommendations and standardised procedures and workflows for performing flow field measurement in TAVI by means of Particle Image Velocimetry (PIV). The document describes working steps and gives general important information in preparation and performing PIV measurements in TAVI. Explanations and recommendations are provided throughout the protocol to extend the understanding of different components and working steps of a PIV system and the corresponding measurement method.

Standards, guidelines, and recommendations for flow field assessment in TAVI were applied. Confronting the current workflow with the evolving practice as the project continues may lead to updates, thus subsequent iterations of the SOP are foreseen.

 

SIMCor (In-Silico testing and validation of Cardiovascular IMplantable devices) has received funding from the European Union's Horizon 2020 research and innovation programme under grant agreement No 101017578.
On the Nagaoka polaron in the t-J model
Creators: name: White, Steven R.
name: Affleck, Ian
Publisher: name: arXiv
Year: 2000
Subjects: subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: Superconductivity (cond-mat.supr-con)
subject: FOS: Physical sciences

description: It is widely believed that a single hole in the two (or three) dimensional t-J model, for sufficiently small exchange coupling J, creates a ferromagnetic bubble around itself, a finite J remnant of the ferromagnetic groundstate at J=0 (the infinite U Hubbard model), first established by Nagaoka. We investigate this phenomenon in two dimensions using the density matrix renormalization group, for system sizes up to 9x9. We find that the polaron forms for J/t<0.02-0.03 (a somewhat larger value than estimated previously). Although finite-size effects appear large, our data seems consistent with the expected 1.1(J/t)^{-1/4} variation of polarion radius. We also test the Brinkman-Rice model of non-retracing paths in a Neel background, showing that it is quite accurate, at larger J. Results are also presented in the case where the Heisenberg interaction is dropped (the t-J^z model). Finally we discuss a "dressed polaron" picture in which the hole propagates freely inside a finite region but makes only self-retracing excursions outside this region.
description: 7 pages, 9 encapsulated figures
An Extractive Video Summarization AppEmploying NLP Techniques
Creators: name: Hamed, Sohayla
name: Hisham, Tasneem
name: Ayman, Abdelrahman
name: Sameh, Ahmed
name: Ahmed, Elsaeed
Publisher: name: figshare
Year: 2024
Subjects: classificationCode: 460208
subject: Natural language processing
classificationCode: 460299
subject: Artificial intelligence not elsewhere classified

description: Videos have constituted more than 17 hours a week from the average user with 500 hours of watch time uploaded every minute on YouTube. Companies have profited from the reliance of 66\% of users on video information by providing them the platforms to stream, create, edit and even gather specific information. In an era of the data boom, summarizing data can get tedious, so text summarizers have gained momentum. Tools like Notta, Jasper and ChatGPT for YouTube are now publicly available. AI technology now enables us to get a full summary by the time the video transcript ends(even if the video still plays some music, in the credits section for example).At first divide, there are two main approaches to video summarization, abstractive and extractive. Abstractive summarization involves generating a summary that may contain new phrases, sentences, or even rephrased information that captures the essence of the original text. Extractive summarization involves selecting and combining the most important sentences or phrases from the source text to create a summary. In this paper, we review NLP techniques that can be used for extractive video summarization. At the end of the paper, we present a python desktop app that groups all of the techniques discussed.
Kirigami mechanics as stress relief by elastic charges
Creators: name: Moshe, Michael
name: Esposito, Edward
name: Shankar, Suraj
name: Bircan, Baris
name: Cohen, Itai
name: Nelson, David R.
name: Bowick, Mark J.
Publisher: name: arXiv
Year: 2018
Subjects: subject: Soft Condensed Matter (cond-mat.soft)
subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: We develop a geometric approach to understand the mechanics of perforated thin elastic sheets, using the method of strain-dependent image elastic charges. This technique recognizes the buckling response of a hole under external load as a geometrically tuned mechanism of stress relief. We use a diagonally pulled square paper frame as a model system to quantitatively test and validate our approach. Specifically, we compare nonlinear force-extension curves and global displacement fields in theory and experiment. We find a strong softening of the force response accompanied by curvature localization at the inner corners of the buckled frame. Counterintuitively, though in complete agreement with our theory, for a range of intermediate hole sizes, wider frames are found to buckle more easily than narrower ones. Upon extending these ideas to many holes, we demonstrate that interacting elastic image charges can provide a useful kirigami design principle to selectively relax stresses in elastic materials.
description: 6 pages, 4 figures; SI: 2 pages, 1 figure
title: ADCO, Cartulaire de Fontenay, second fragment (XIIIe siècle), Cart. 201 (15 H 9), folios 47-142, f. 048v
Creators: name: de la Côte d'Or, Archives départementales
name: Archives Départementales De La Côte-D'Or
name: Petot, Frédérique
name: Projet CBMA
name: CG21/F.PETOT/2009
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2020
Subjects: subject: Corpus Burgundiae Medii Aevi
subject: Chartes de la Bourgogne du Moyen Âge
subject: cartulaire
subject: LaMOP
subject: Laboratoire de Médiévistique Occidentale de Paris

description: Cartulaire de Fontenay, second fragment (XIIIe siècle), Archives départementales de la Côte-d'Or, Cart. 201 (15 H 9), folios 47-142. Numérisation en mode image.
description: Relation: http://www.cbma-project.eu/
description: Bibliographic citation: Cartulaire de Fontenay, second fragment (XIIIe siècle), Archives départementales de la Côte-d'Or, Cart. 201 (15 H 9), folios 47-142, f. 048v, in Projet CBMA - Corpus Burgundiae Medii Aevi [Ressource en ligne], https:// manuscrits.cbma-project.eu/
description: Provenance: https://catalogue.bnf.fr/ark:/12148/cb119679755
description: Provenance: https://www.geonames.org/7874015
description: Provenance: http://www.idref.fr/027691802/id
description: Provenance: abbaye de Fontenay
description: Provenance: http://www.wikidata.org/entity/Q464918
Glebionis segetum Fourr.
Creators: name: Jarvis, Charlie
Publisher: name: Linnaean Society of London in association with the Natural History Museum
Year: 2007
Subjects: Biodiversity
Taxonomy
Plantae
Tracheophyta
Magnoliopsida
Asterales
Asteraceae
Glebionis
Glebionis segetum

description: Chrysanthemum segetum Linnaeus, Species Plantarum 2: 889. 1753.
"Habitat in Scaniae, Germaniae, Belgii, Angliae, Galliae agris." RCN: 6443.
 Lectotype (Grierson in Dassanayake & Fosberg, Revised Handb. Fl. Ceylon 1: 237. 1980): Herb. Clifford: 416, Chrysanthemum 2 (BM-000647213).
 Current name:  Glebionis segetum  (L.) Fourr. (Asteraceae).
 Note: Chrysanthemum coronarium L. had long been treated as the generitype until Trehane (in Taxon 44: 439. 1995) proposed the conservation of Chrysanthemum with C. indicum L. as the conserved type, in order to restrict the generic name to the florists’ chrysanthemum. The proposal was successful, resulting in Glebionis Cass, becoming the correct generic name for C. segetum L. and C. coronarium.
description: Published as part of Jarvis, Charlie, 2007, Chapter 7: Linnaean Plant Names and their Types (part C), pp. 370-473 in Order out of Chaos. Linnaean Plant Types and their Types, London :Linnaean Society of London in association with the Natural History Museum on page 414, DOI: 10.5281/zenodo.291971
Additional file 9: of Physiological and iTRAQ-based proteomic analyses reveal the function of exogenous γ-aminobutyric acid (GABA) in improving tea plant (Camellia sinensis L.) tolerance at cold temperature
Creators: name: Zhu, Xujun
name: Liao, Jieren
name: Xia, Xingli
name: Xiong, Fei
name: Li, Yue
name: Shen, Jiazhi
name: Wen, Bo
name: Ma, Yuanchun
name: Wang, Yuhua
name: Fang, Wanping
Publisher: name: figshare
Year: 2019
Subjects: subject: Biophysics
subject: Biochemistry
subject: Cell Biology
subject: Molecular Biology
subject: Pharmacology
subject: Environmental Sciences not elsewhere classified
subject: Chemical Sciences not elsewhere classified
subject: Ecology
subject: FOS: Biological sciences
subject: Developmental Biology
subject: Cancer
subject: Plant Biology

description: Figure S1: Changes in free proline content and MDA activity during the four treatments (25 °C, 25 °C + GABA, 4 °C and 4 °C + GABA for T1, T2, T3 and T4, respectively). All experiments were performed in triplicate. Data represent the mean value ± standard deviation. Means with different letters are significantly different from each other (p ≤ 0.05). MDA, malonaldehyde. (PDF 153 kb)