cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
title: ADCO, Neuvième cartulaire de Saint-Étienne de Dijon (1661 - 1684), Cart. 32 (G 136), 745 folios, f. 0722
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: cartulaire
subject: Corpus Burgundiae Medii Aevi
subject: Chartes de la Bourgogne du Moyen Âge
subject: LaMOP
subject: Laboratoire de Médiévistique Occidentale de Paris

description: Neuvième cartulaire de Saint-Étienne de Dijon (1661 - 1684), Archives départementales de la Côte-d'Or, Cart. 32 (G 136), 745 folios, f. 0722, Numérisation en mode image.
description: Relation: http://www.cbma-project.eu/
description: Bibliographic citation: Neuvième cartulaire de Saint-Étienne de Dijon (1661 - 1684), Archives départementales de la Côte-d'Or, Cart. 32 (G 136), 745 folios, f. 0722, in Projet CBMA - Corpus Burgundiae Medii Aevi [Ressource en ligne], https:// manuscrits.cbma-project.eu/
description: Provenance: abbaye Saint-Étienne de Dijon
description: Provenance: http://www.wikidata.org/entity/Q15945019
Structured association analysis leads to insight into Saccharomyces cerevisiae gene regulation by finding multiple contributing eQTL hotspots associated with functional gene modules.
Creators: name: Curtis, Ross E.
name: Seyoung  Kim
name: Woolford, John
name: Wenjie  Xu
name: Xing, Eric P
Publisher: name: Carnegie Mellon University
Year: 2013
Subjects: subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences

description: BACKGROUND: Association analysis using genome-wide expression quantitative trait locus (eQTL) data investigates the effect that genetic variation has on cellular pathways and leads to the discovery of candidate regulators. Traditional analysis of eQTL data via pairwise statistical significance tests or linear regression does not leverage the availability of the structural information of the transcriptome, such as presence of gene networks that reveal correlation and potentially regulatory relationships among the study genes. We employ a new eQTL mapping algorithm, GFlasso, which we have previously developed for sparse structured regression, to reanalyze a genome-wide yeast dataset. GFlasso fully takes into account the dependencies among expression traits to suppress false positives and to enhance the signal/noise ratio. Thus, GFlasso leverages the gene-interaction network to discover the pleiotropic effects of genetic loci that perturb the expression level of multiple (rather than individual) genes, which enables us to gain more power in detecting previously neglected signals that are marginally weak but pleiotropically significant. RESULTS: While eQTL hotspots in yeast have been reported previously as genomic regions controlling multiple genes, our analysis reveals additional novel eQTL hotspots and, more interestingly, uncovers groups of multiple contributing eQTL hotspots that affect the expression level of functional gene modules. To our knowledge, our study is the first to report this type of gene regulation stemming from multiple eQTL hotspots. Additionally, we report the results from in-depth bioinformatics analysis for three groups of these eQTL hotspots: ribosome biogenesis, telomere silencing, and retrotransposon biology. We suggest candidate regulators for the functional gene modules that map to each group of hotspots. Not only do we find that many of these candidate regulators contain mutations in the promoter and coding regions of the genes, in the case of the Ribi group, we provide experimental evidence suggesting that the identified candidates do regulate the target genes predicted by GFlasso. CONCLUSIONS: Thus, this structured association analysis of a yeast eQTL dataset via GFlasso, coupled with extensive bioinformatics analysis, discovers a novel regulation pattern between multiple eQTL hotspots and functional gene modules. Furthermore, this analysis demonstrates the potential of GFlasso as a powerful computational tool for eQTL studies that exploit the rich structural information among expression traits due to correlation, regulation, or other forms of biological dependencies.
Binary Stars in the Orion Nebula Cluster
Creators: name: Koehler, Rainer
name: Petr-Gotzens, Monika G.
name: McCaughrean, Mark J.
name: Bouvier, Jerome
name: Duchene, Gaspard
name: Quirrenbach, Andreas
name: Zinnecker, Hans
Publisher: name: arXiv
Year: 2006
Subjects: subject: Astrophysics (astro-ph)
subject: FOS: Physical sciences

description: We report on a high-spatial-resolution survey for binary stars in the periphery of the Orion Nebula Cluster, at 5 - 15 arcmin (0.65 - 2 pc) from the cluster center. We observed 228 stars with adaptive optics systems, in order to find companions at separations of 0.13" - 1.12" (60 - 500 AU), and detected 13 new binaries. Combined with the results of Petr (1998), we have a sample of 275 objects, about half of which have masses from the literature and high probabilities to be cluster members. We used an improved method to derive the completeness limits of the observations, which takes into account the elongated point spread function of stars at relatively large distances from the adaptive optics guide star. The multiplicity of stars with masses >2 M_sun is found to be significantly larger than that of low-mass stars. The companion star frequency of low-mass stars is comparable to that of main-sequence M-dwarfs, less than half that of solar-type main-sequence stars, and 3.5 to 5 times lower than in the Taurus-Auriga and Scorpius-Centaurus star-forming regions. We find the binary frequency of low-mass stars in the periphery of the cluster to be the same or only slightly higher than for stars in the cluster core (<3 arcmin from theta1C Ori). This is in contrast to the prediction of the theory that the low binary frequency in the cluster is caused by the disruption of binaries due to dynamical interactions. There are two ways out of this dilemma: Either the initial binary frequency in the Orion Nebula Cluster was lower than in Taurus-Auriga, or the Orion Nebula Cluster was originally much denser and dynamically more active.
description: 20 pages
Structure of the membrane-tethering GRASP domain reveals a unique PDZ ligand interaction that mediates Golgi biogenesis.
Creators: name: Truschel, Steven T.
name: Debrup  Sengupta
name: Foote, Adam
name: Heroux, Annie
name: Macbeth, Mark R.
name: Linstedt, Adam
Publisher: name: Carnegie Mellon University
Year: 2011
Subjects: subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences

description: Biogenesis of the ribbon-like membrane network of the mammalian Golgi requires membrane tethering by the conserved GRASP domain in GRASP65 and GRASP55, yet the tethering mechanism is not fully understood. Here, we report the crystal structure of the GRASP55 GRASP domain, which revealed an unusual arrangement of two tandem PDZ folds that more closely resemble prokaryotic PDZ domains. Biochemical and functional data indicated that the interaction between the ligand-binding pocket of PDZ1 and an internal ligand on PDZ2 mediates the GRASP self-interaction, and structural analyses suggest that this occurs via a unique mode of internal PDZ ligand recognition. Our data uncover the structural basis for ligand specificity and provide insight into the mechanism of GRASP-dependent membrane tethering of analogous Golgi cisternae.
KT4D Social Risk Toolkit - Modules D and E
Creators: name: Hyams, Keith
name: Sutherland, Jessica
name: Ojanen, Atte
name: Björk, Anna
name: Bettiol, Alberto
name: Francis, Kate
name: Kuyoh, Wendy
name: Hanafy, Ruanne
Publisher: name: Zenodo
Year: 2024

description: Given the current speed of advancements in the development of knowledge technologies, particularly AI, athorough analysis of the key concepts and their risks is crucial. Central to the KT4D project is the aim to conceptualise the current state of the art in regard to the impact of AI and big data on democracy from the perspective of governments, companies, and organisations. The analysis included in this deliverable is based on a literature review and applied philosophical analysis and focuses on conceptualising and robustly defining risks that the use of personal data and user profiling pose from an institutional perspective.
Stability issues in the modified Starobinsky model
Creators: name: Pelinson, A. M.
name: Shapiro, I. L.
name: Takakura, F. I.
Publisher: name: arXiv
Year: 2003
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: We discuss the stability of the anomaly-induced inflation (modified Starobinsky model) with respect to the arbitrary choice of initial data and with respect to the small perturbations of the conformal factor and tensor modes of the metric in the later period of inflation and, partially, in the present Universe.
description: Talk presented at IRGA 2003 (Renormalization Group and Anomalies in Gravitation and Cosmology, Ouro Preto, Brazil, 16-23 March, 2003)
A Multi-component Matched Filter Cluster Confirmation Tool for eROSITA: Initial Application to the RASS and DES-SV Datasets
Creators: name: Klein, M.
name: Mohr, J. J.
name: Desai, S.
name: Israel, H.
name: Allam, S.
name: Benoit-Lévy, A.
name: Brooks, D.
name: Buckley-Geer, E.
name: Rosell, A. Carnero
name: Kind, M. Carrasco
name: Cunha, C. E.
name: da Costa, L. N.
name: Dietrich, J. P.
name: Eifler, T. F.
name: Evrard, A. E.
name: Frieman, J.
name: Gruen, D.
name: Gruendl, R. A.
name: Gutierrez, G.
name: Honscheid, K.
name: James, D. J.
name: Kuehn, K.
name: Lima, M.
name: Maia, M. A. G.
name: March, M.
name: Melchior, P.
name: Menanteau, F.
name: Miquel, R.
name: Plazas, A. A.
name: Reil, K.
name: Romer, A. K.
name: Sanchez, E.
name: Santiago, B.
name: Scarpine, V.
name: Schubnell, M.
name: Sevilla-Noarbe, I.
name: Smith, M.
name: Soares-Santos, M.
name: Sobreira, F.
name: Suchyta, E.
name: Swanson, M. E. C.
name: Tarle, G.
name: Collaboration, the DES
Publisher: name: arXiv
Year: 2017
Subjects: subject: Cosmology and Nongalactic Astrophysics (astro-ph.CO)
subject: FOS: Physical sciences

description: We describe a multi-component matched filter cluster confirmation tool (MCMF) designed for the study of large X-ray source catalogs produced by the upcoming X-ray all-sky survey mission eROSITA. We apply the method to confirm a sample of 88 clusters with redshifts $0.05
description: 20 pages, 19 figures
Disk evolution and the fate of water
Creators: name: Hartmann, Lee
name: Ciesla, Fred
name: Gressel, Oliver
name: Alexander, Richard
Publisher: name: arXiv
Year: 2017
Subjects: subject: Solar and Stellar Astrophysics (astro-ph.SR)
subject: FOS: Physical sciences

description: We review the general theoretical concepts and observational constraints on the distribution and evolution of water vapor and ice in protoplanetary disks, with a focus on the Solar System. Water is expected to freeze out at distances greater than 1-3 AU from solar-type central stars; more precise estimates are difficult to obtain due to uncertainties in the complex processes involved in disk evolution, including dust growth, settling, and radial drift, and the level of turbulence and viscous dissipation within disks. Interferometric observations are now providing constraints on the positions of CO snow lines, but extrapolation to the unresolved regions where water ice sublimates will require much better theoretical understanding of mass and angular momentum transport in disks as well as more refined comparison of observations with sophisticated disk models.
description: 26 pages, 8 figures: in the proceedings of the ISSI workshop on "The delivery of water to proto-planets, planets and satellites", to appear in Space Science Reviews
ผลของการใช้กิจกรรมการเรียนรู้อย่างมีส่วนร่วมเพื่อการพัฒนาจิตสาธารณะนักเรียนชั้นประถมศึกษาปีที่ 6 โรงเรียนประถมศึกษา ในจังหวัดเชียงใหม่
Creators: name: นงนภัส พันธ์พลกฤต
name: ปุณณาสา โพธิพฤกษ์
name: นงลักษณ์ ศรีวิชัย
name: รัชฎาภรณ์ เจนวชิรพงค์
name: สุรีย์วรรณ จันทรบูรณ์
name: สุรีพันธ์ เทพอุด
name: รัตตินาถ เพชรมณี
name: ออมบุญ บุรุษภักดี
Publisher: name: วารสารมหาวิทยาลัยพายัพ
Year: 2019
Subjects: จิตสาธารณะ
กิจกรรมการเรียนรู้อย่างมีส่วนร่วม
นักเรียนชั้นประถมศึกษาปีที่ 6

description: วารสารมหาวิทยาลัยพายัพ, 29, 2, 161
Structure of an arrestin2-clathrin complex reveals a novel clathrin binding domain that modulates receptor trafficking.
Creators: name: Kang, Dong Soo
name: Kern, Ronald C.
name: Manojkumar Puthenveedu
name: Zastrow, Mark Von
name: Williams, John C.
name: Benovic, Jeffrey L.
Publisher: name: Carnegie Mellon University
Year: 2009
Subjects: subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences

description: Non-visual arrestins play a pivotal role as adaptor proteins in regulating the signaling and trafficking of multiple classes of receptors. Although arrestin interaction with clathrin, AP-2, and phosphoinositides contributes to receptor trafficking, little is known about the configuration and dynamics of these interactions. Here, we identify a novel interface between arrestin2 and clathrin through x-ray diffraction analysis. The intrinsically disordered clathrin binding box of arrestin2 interacts with a groove between blades 1 and 2 in the clathrin beta-propeller domain, whereas an 8-amino acid splice loop found solely in the long isoform of arrestin2 (arrestin2L) interacts with a binding pocket formed by blades 4 and 5 in clathrin. The apposition of the two binding sites in arrestin2L suggests that they are exclusive and may function in higher order macromolecular structures. Biochemical analysis demonstrates direct binding of clathrin to the splice loop in arrestin2L, whereas functional analysis reveals that both binding domains contribute to the receptor-dependent redistribution of arrestin2L to clathrin-coated pits. Mutagenesis studies reveal that the clathrin binding motif in the splice loop is (L/I)(2)GXL. Taken together, these data provide a framework for understanding the dynamic interactions between arrestin2 and clathrin and reveal an essential role for this interaction in arrestin-mediated endocytosis.
Quantitative recurrence and large deviations for Teichmuller geodesic flow
Creators: name: Athreya, Jayadev S.
Publisher: name: arXiv
Year: 2005
Subjects: subject: Dynamical Systems (math.DS)
subject: Differential Geometry (math.DG)
subject: FOS: Mathematics
subject: 32G15, 37A10

description: We prove quantitative recurrence and large deviations results for the Teichmuller geodesci flow on a connected component of a stratum of the moduli space $Q_g$ of holomorphic unit-area quadratic differentials on a compact genus $g \geq 2$ surface.
description: Appeared in Geometriae Dedicata, April 2006
Constraints on Flavored 2d CFT Partition Functions
Creators: name: Dyer, Ethan
name: Fitzpatrick, A. Liam
name: Xin, Yuan
Publisher: name: arXiv
Year: 2017
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: We study the implications of modular invariance on 2d CFT partition functions with abelian or non-abelian currents when chemical potentials for the charges are turned on, i.e. when the partition functions are "flavored". We begin with a new proof of the transformation law for the modular transformation of such partition functions. Then we proceed to apply modular bootstrap techniques to constrain the spectrum of charged states in the theory. We improve previous upper bounds on the state with the greatest "mass-to-charge" ratio in such theories, as well as upper bounds on the weight of the lightest charged state and the charge of the weakest charged state in the theory. We apply the extremal functional method to theories that saturate such bounds, and in several cases we find the resulting prediction for the occupation numbers are precisely integers. Because such theories sometimes do not saturate a bound on the full space of states but do saturate a bound in the neutral sector of states, we find that adding flavor allows the extremal functional method to solve for some partition functions that would not be accessible to it otherwise.
description: 45 pages, 16 Figures v3: typos corrected, expanded appendix on numeric implementation
Umbilicaria vellea Ach.
Creators: name: Jarvis, Charlie
Publisher: name: Linnaean Society of London in association with the Natural History Museum
Year: 2007
Subjects: Biodiversity
Taxonomy
Fungi
Ascomycota
Lecanoromycetes
Umbilicariales
Umbilicariaceae
Umbilicaria
Umbilicaria vellea

description: Lichen velleus Linnaeus, Species Plantarum 2: 1150. 1753.
"Habitat in alpinis Lapponiae, Sueciae, Angliae. rupestris." RCN: 8224.
 Lectotype (Howe in Bull. Torrey Bot. Club 39: 201. 1912; Jørgensen & al. in Bot. J. Linn. Soc. 115: 364, f. 64. 1994): Herb. Linn. No. 1273.199, right specimen (LINN).
 Current name: Umbilicaria vellea (L.) Ach. (Umbiliculariaceae).
 Note: Jørgensen & al. (in Bot. J. Linn. Soc. 115: 364, 382, f. 64. 1994) restricted Howe’s original type choice to one of the specimens on the sheet.
description: Published as part of Jarvis, Charlie, 2007, Chapter 7: Linnaean Plant Names and their Types (part L), pp. 610-650 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 631, DOI: 10.5281/zenodo.291971
title: Tassos ,Dritte Räume‘
title: Ein Dialog über ,Hybridisierung‘ als Schlüsselbegriff für die Beschreibung von Theorie und Praxis epischen Dichtens bei Torquato Tasso
titleType: Subtitle
Creators: name: Capparelli, Maria Debora
name: Di Santo, Federico
name: Nelting, David
Publisher: name: Freie Universität Berlin
Year: 2020
Subjects: subject: Literatur
subject: Torquato Tasso
subject: Epos
subject: Epostheorie
subject: Romanzo
subject: Poema
subject: Humanismus
subject: Gegenreformation
subject: Hybridisierung
subject: 800 Literatur::850 Italienische, rumänische, rätoromanische Literaturen::851 Italienische Versdichtung
subject: 800 Literatur::800 Literatur, Rhetorik, Literaturwissenschaft::801 Literaturtheorie

description: Das Teilprojekt 05 der FOR 2305 (Canto l’arme pietose. Hybridisierungen von ‚alt‘ und ‚neu‘ in Epos und Epostheorie des Secondo Cinquecento), möchte gängige hermeneutische Purifikationen poetischer Dynamiken, welche z.B. das Verhältnis von romanzo und poema oder von ‚Humanismus‘ und ‚Gegenreformation‘ betreffen, einer Revision unterziehen. Mit Fokus auf Torquato Tasso soll gefragt werden, ob sich in den betreffenden Zusammenhängen anstelle von Dichotomien nicht auch Hybridisierungen beobachten lassen. Die zentrale These des Teilprojekts lautet, dass ‚alte’ und ‚neue’ Diskurse bei Tasso in einem Spannungsverhältnis von Rückversicherung und Traditionsbruch nicht nur miteinander konkurrieren, sondern dass sie sich mit dem Ziel einer umfassenden Integration gegenseitig durchdringen. Dieser Ansatz ist auf der Abschlusstagung der FOR („Multitemporalitäten, Heterochronien, novantiquitates“) am 4. und 5. April 2019 mit einem auswärtigen Respondenten, Federico Di Santo, diskutiert worden. Das vorliegende Working Paper gibt den betreffenden Austausch wider; wesentliche Bereiche sind die Beziehung von romanzo, poema und epopeia sowie die Anwendbarkeit der Hybridisierungs-Kategorie, vor allem mit Blick auf Tassos Darstellung von pagani und cristiani.
Structure and dynamics of the pan-genome of Streptococcus pneumoniae and closely related species.
Creators: name: Donati, Claudio
name: Hiller, Natalia
name: Herve  Tettelin
name: Muzzi, Alessandro
name: Croucher, Nicholas J.
name: Angiuoli, Samuel V.
name: Oggioni, Marco
name: Hotopp, Julie C. Dunning
name: Hu, Fen Z.
name: Riley, David R.
name: Covacci, Antonello
name: Mitchell, Tim J.
name: Bentley, Stephen D.
name: Morgens  Kilian
name: Ehrlich, Garth D.
name: Rappuoli, Rino
name: E. Richard  Moxon
name: Masignani, Vega
Publisher: name: Carnegie Mellon University
Year: 2010
Subjects: subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences

description: BACKGROUND: Streptococcus pneumoniae is one of the most important causes of microbial diseases in humans. The genomes of 44 diverse strains of S. pneumoniae were analyzed and compared with strains of non-pathogenic streptococci of the Mitis group. RESULTS: Despite evidence of extensive recombination, the S. pneumoniae phylogenetic tree revealed six major lineages. With the exception of serotype 1, the tree correlated poorly with capsular serotype, geographical site of isolation and disease outcome. The distribution of dispensable genes--genes present in more than one strain but not in all strains--was consistent with phylogeny, although horizontal gene transfer events attenuated this correlation in the case of ancient lineages. Homologous recombination, involving short stretches of DNA, was the dominant evolutionary process of the core genome of S. pneumoniae. Genetic exchange occurred both within and across the borders of the species, and S. mitis was the main reservoir of genetic diversity of S. pneumoniae. The pan-genome size of S. pneumoniae increased logarithmically with the number of strains and linearly with the number of polymorphic sites of the sampled genomes, suggesting that acquired genes accumulate proportionately to the age of clones. Most genes associated with pathogenicity were shared by all S. pneumoniae strains, but were also present in S. mitis, S. oralis and S. infantis, indicating that these genes are not sufficient to determine virulence. CONCLUSIONS: Genetic exchange with related species sharing the same ecological niche is the main mechanism of evolution of S. pneumoniae. The open pan-genome guarantees the species a quick and economical response to diverse environments.
Statistical symmetry restoration in fully developed turbulence: Renormalization group analysis of two models
Creators: name: Antonov, N. V.
name: Gulitskiy, N. M.
name: Kostenko, M. M.
name: Malyshev, A. V.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Statistical Mechanics (cond-mat.stat-mech)
subject: FOS: Physical sciences

description: In this paper we consider the model of incompressible fluid described by the stochastic Navier-Stokes equation with finite correlation time of a random force. Inertial-range asymptotic behavior of fully developed turbulence is studied by means of the field theoretic renormalization group within the one-loop approximation. It is corroborated that regardless of the values of model parameters and initial data, the inertial-range behavior of the model is described by limiting case of vanishing correlation time. It indicates that the Galilean symmetry of the model violated by the "colored" random force is restored in the inertial range. This regime corresponds to the only nontrivial fixed point of the renormalization group equation. The stability of this point depends on the relation between the exponents in the energy spectrum ${\cal E} \propto k^{1-y}$ and the dispersion law $ω\propto k^{2-η}$. The second analyzed problem is the passive advection of a scalar field by this velocity ensemble. Correlation functions of the scalar field exhibit anomalous scaling behavior in the inertial-convective range. We demonstrate that in accordance with Kolmogorov's hypothesis of the local symmetry restoration, the main contribution to the operator product expansion is given by the isotropic operator, while anisotropic terms should be considered only as corrections.
description: 21 pages, 9 figures. Version revisited by the journal and accepted for publication; minor corrections
Gravitational waves in an anomaly-induced inflation
Creators: name: Fabris, J. C.
name: Pelinson, A. M.
name: Shapiro, I. L.
name: Takakura, F. I.
Publisher: name: arXiv
Year: 2003
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: The behaviour of gravitational waves in the anomaly-induced inflationary phase is studied. The metric perturbations exhibit a stable behaviour, with a very moderate growth in the amplitude of the waves. The spectral indice is computed, revealing an almost flat spectrum.
description: 4 pages. Talk presented at IRGA 2003 (Renormalization Group and Anomalies in Gravitation and Cosmology, Ouro Preto, Brazil, 16-23 March, 2003)
Structural insights into a unique inhibitor binding pocket in kinesin spindle protein.
Creators: name: Venkatasubramanian  Ulaganathan
name: Talapatra, Sandeep K.
name: Rath, Oliver
name: Pannifer, Andrew
name: Hackney, David
name: Kozielski, Frank
Publisher: name: Carnegie Mellon University
Year: 2013
Subjects: subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences

description: Human kinesin Eg5 is a target for drug development in cancer chemotherapy with compounds in phase II clinical trials. These agents bind to a well-characterized allosteric pocket involving the loop L5 region, a structural element in kinesin-5 family members thought to provide inhibitor specificity. Using X-ray crystallography, kinetic, and biophysical methods, we have identified and characterized a distinct allosteric pocket in Eg5 able to bind inhibitors with nanomolar K(d). This pocket is formed by key structural elements thought to be pivotal for force generation in kinesins and may represent a novel site for therapeutic intervention in this increasingly well-validated drug target.
Prediction error identification of linear dynamic networks with rank-reduced noise
Creators: name: Weerts, Harm H. M.
name: Hof, Paul M. J. Van den
name: Dankers, Arne G.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Systems and Control (eess.SY)
subject: FOS: Electrical engineering, electronic engineering, information engineering

description: Dynamic networks are interconnected dynamic systems with measured node signals and dynamic modules reflecting the links between the nodes. We address the problem of \red{identifying a dynamic network with known topology, on the basis of measured signals}, for the situation of additive process noise on the node signals that is spatially correlated and that is allowed to have a spectral density that is singular. A prediction error approach is followed in which all node signals in the network are jointly predicted. The resulting joint-direct identification method, generalizes the classical direct method for closed-loop identification to handle situations of mutually correlated noise on inputs and outputs. When applied to general dynamic networks with rank-reduced noise, it appears that the natural identification criterion becomes a weighted LS criterion that is subject to a constraint. This constrained criterion is shown to lead to maximum likelihood estimates of the dynamic network and therefore to minimum variance properties, reaching the Cramer-Rao lower bound in the case of Gaussian noise.
description: 17 pages, 5 figures, revision submitted for publication in Automatica, 4 April 2018
Quasi-stationary Electromagnetic Effects in Conductors and Superconductors in Schwarzchild Space-time
Creators: name: Ahmedov, B. J.
name: Fattoyev, F. J.
Publisher: name: arXiv
Year: 2006
Subjects: subject: Astrophysics (astro-ph)
subject: General Relativity and Quantum Cosmology (gr-qc)
subject: FOS: Physical sciences

description: The general principles needed to compute the effect of a stationary gravitational field on the quasistationary electromagnetic phenomena in normal conductors and superconductors are formulated from general relativistic point of view. Generalization of the skin effect, that is the general relativistic modification of the penetration depth (of the time-dependent magnetic field in the conductor) due to its relativistic coupling to the gravitational field is obtained. The effect of the gravitational field on the penetration and coherence depths in superconductors is also studied. As an illustration of the foregoing general results, we discuss their application to superconducting systems in the outer core of neutron stars. The relevance of these effects to electrodynamics of magnetized neutron stars has been shown.
description: 17 pages, 3 figures
title: Conditions that foster engagement and motivation in distributed learning: a case study
Creators: name: Hall, Stephanie L.
Publisher: name: Electronic version published by Vancouver Island University
Year: 2019
Subjects: subject: Blended learning
subject: Motivation in education

description: Engagement and motivation are perpetual issues in the field of education. The increase in distributed learning (DL), also referred to as e-learning or distance learning, has prompted studies that look at these age-old concepts in this new context. This study was designed to better understand conditions that exist as part of the Partners in Education (PIE) DL program that foster student engagement and motivation. It was suspected that keeping the same teacher year-after-year, providing activities for students to meet and learn together, and student choice and flexibility, in pace and topic, in relation to prescribed areas of study, foster engagement and motivation for PIE students. A mixed methods instrumental case study approach was chosen for this research project because of the desire to obtain quantitative data directly from students, the existence of qualitative data, and because of the unique nature of the PIE program. The findings of this research indicate, with limited validity due to the size of the samples, that PIE students are emotionally, behaviourally, and cognitively engaged with a predominant motivation style of extrinsically identified. While it was never the goal to prove the hypothesis, the research supports the opinion that each of the conditions suspected of fostering engagement and motivation seem to be doing just that.
Striatal microcircuitry and movement disorders.
Creators: name: Aryn Gittis
name: Kreitzer, Anatol C.
Publisher: name: Carnegie Mellon University
Year: 2012
Subjects: subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences

description: The basal ganglia network serves to integrate information about context, actions, and outcomes to shape the behavior of an animal based on its past experience. Clinically, the basal ganglia receive the most attention for their role in movement disorders. Recent advances in technology have opened new avenues of research into the structure and function of basal ganglia circuits. One emerging theme is the importance of GABAergic interneurons in coordinating and regulating network function. Here, we discuss evidence that changes in striatal GABAergic microcircuits contribute to basal ganglia dysfunction in several movement disorders. Because interneurons are genetically and neurochemically unique from striatal projection neurons, they may provide promising therapeutic targets for the treatment of a variety of striatal-based disorders.
Accurate Chemical Master Equation Solution Using Multi-Finite Buffers
Creators: name: Cao, Youfang
name: Terebus, Anna
name: Liang, Jie
Publisher: name: arXiv
Year: 2017
Subjects: subject: Quantitative Methods (q-bio.QM)
subject: FOS: Biological sciences

description: The discrete chemical master equation (dCME) provides a fundamental framework for studying stochasticity in mesoscopic networks. Because of the multi-scale nature of many networks where reaction rates have large disparity, directly solving dCMEs is intractable due to the exploding size of the state space. It is important to truncate the state space effectively with quantified errors, so accurate solutions can be computed. It is also important to know if all major probabilistic peaks have been computed. Here we introduce the Accurate CME (ACME) algorithm for obtaining direct solutions to dCMEs. With multi-finite buffers for reducing the state space by O(n!), exact steady-state and time-evolving network probability landscapes can be computed. We further describe a theoretical framework of aggregating microstates into a smaller number of macrostates by decomposing a network into independent aggregated birth and death processes, and give an a priori method for rapidly determining steady-state truncation errors. The maximal sizes of the finite buffers for a given error tolerance can also be pre-computed without costly trial solutions of dCMEs. We show exactly computed probability landscapes of three multi-scale networks, namely, a 6-node toggle switch, 11-node phage-lambda epigenetic circuit, and 16-node MAPK cascade network, the latter two with no known solutions. We also show how probabilities of rare events can be computed from first-passage times, another class of unsolved problems challenging for simulation-based techniques due to large separations in time scales. Overall, the ACME method enables accurate and efficient solutions of the dCME for a large class of networks.
description: 44 pages, 13 figures
Tomography of the intergalactic medium with Ly-alpha forests in close QSO pairs
Creators: name: D'Odorico, V.
name: Viel, M.
name: Saitta, F.
name: Cristiani, S.
name: Bianchi, S.
name: Boyle, B.
name: Lopez, S.
name: Maza, J.
name: Outram, P.
Publisher: name: arXiv
Year: 2006
Subjects: subject: Astrophysics (astro-ph)
subject: FOS: Physical sciences

description: We study the three-dimensional distribution of non virialised matter at z~2 using high resolution spectra of QSO pairs and simulated spectra drawn from cosmological hydrodynamical simulations. We have collected the largest sample of QSO pairs ever observed with UVES at the ESO-VLT, with angular separations between ~1 and 14 arcmin. The observed correlation functions of the transmitted flux in the HI Lyman alpha forest along and transverse to the lines of sight are in good agreement implying that the distortions in redshift space due to peculiar velocities are small. The clustering signal is significant up to velocity separations of ~200 km/s, or about 3 h^{-1} comoving Mpc. The regions at lower overdensity (rho/ < 6.5) are still clustered but on smaller scales (Delta v < 100 km/s). The observed and simulated correlation functions are compatible at the 3 sigma level. A better concordance is obtained when only the low overdensity regions are selected for the analysis or when the effective optical depth of the simulated spectra is increased artificially, suggesting a deficiency of strong lines in the simulated spectra. We found that also a lower value of the power-law index of the temperature-density relation for the Lyman alpha forest gas improves the agreement between observed and simulated results. If confirmed, this would be consistent with other observations favouring a late HeII reionization epoch (at z~3). We remark the detection of a significant clustering signal in the cross correlation coefficient at a transverse velocity separation Delta v_{\perp} ~500 km/s whose origin needs further investigation.
description: Accepted for publication in MNRAS, revised version matching the accepted one
Rapidity correlations in the RHIC Beam Energy Scan Data
Creators: name: Jowzaee, Sedigheh
Publisher: name: arXiv
Year: 2017
Subjects: subject: Nuclear Experiment (nucl-ex)
subject: High Energy Physics - Experiment (hep-ex)
subject: FOS: Physical sciences

description: A pair-normalized two-particle covariance versus the rapidity of the two particles, called R$_2$, was originally studied in ISR and FNAL data in the 1970's. This variable has recently seen renewed interest for the study of the dynamics of heavy-ion collisions in the longitudinal direction. These rapidity correlations can be decomposed into a basis set of Legendre polynomials with prefactors $\langle a_{mn}\rangle$, which can be considered the rapidity analog of the decomposition of azimuthal anisotropies into a set of cosine functions with prefactors v$_{\rm n}$. The $\langle a_{mn}\rangle$ values have been suggested to be sensitive to the number of particle emitting sources, baryon stopping, viscosities, and critical behavior. The rapidity correlations have been measured by the STAR collaboration as a function of the beam energy for 0-5% central Au$+$Au collisions with beam energies ranging from 7.7 to 200 $\mathrm{GeV}$. The experimental results and comparisons to the UrQMD model are presented.
Biatora vernalis Fr.
Creators: name: Jarvis, Charlie
Publisher: name: Linnaean Society of London in association with the Natural History Museum
Year: 2007
Subjects: Biodiversity
Taxonomy
Fungi
Ascomycota
Lecanoromycetes
Lecanorales
Ramalinaceae
Biatora
Biatora vernalis

description: Lichen vernalis Linnaeus, Systema Naturae, ed. 12, 3: 234. 1768, nom. cons.
"Habitat primo vere in aridissimo colle Polonico Upsaliae & passim in Europa." RCN: 8166.
 Conserved type (Jørgensen & al. in Taxon 43: 654. 1994): Sweden. Fries, Lich. Suec. Exsicc. No. 224 (UPS).
 Current name: Biatora vernalis (L.) Fr. (Lecanoraceae).
 Note: See review by Jørgensen & al. (in Bot. J. Linn. Soc. 115: 365, 382. 1994). They chose a Dillenian figure as lectotype, but it and the other original elements do not correspond with usage. These authors, however, successfully proposed the name for conservation with a conserved type.
description: Published as part of Jarvis, Charlie, 2007, Chapter 7: Linnaean Plant Names and their Types (part L), pp. 610-650 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 631, DOI: 10.5281/zenodo.291971
"Synchronize" to VR Body: Full Body Illusion in VR Space
Creators: name: Xiong, Peikun
name: Sun, Chen
name: Cai, Dongsheng
Publisher: name: arXiv
Year: 2017
Subjects: subject: Human-Computer Interaction (cs.HC)
subject: FOS: Computer and information sciences
subject: H.5.1

description: Virtual Reality (VR) becomes accessible to mimic a "real-like" world now. People who have a VR experience usually can be impressed by the immersive feeling, they might consider themselves are actually existed in the VR space. Self-consciousness is important for people to identify their own characters in VR space, and illusory ownership can help people to "build" their "bodies". The rubber hand illusion can convince us a fake hand made by rubber is a part of our bodies under certain circumstances. Researches about autoscopic phenomena extend this illusory to the so-called full body illusion. We conducted 3 type of experiments to study the illusory ownership in VR space as it shows in Figure 1, and we learned: Human body must receive the synchronized visual signal and somatosensory stimulus at the same time; The visual signal must be the first person perceptive; the subject and the virtual body needs to be the same height as much as possible. All these illusory ownerships accompanied by the body temperature decreases, where the body is stimulated.
description: 4 pages, 4 figures, Eurographics 2017,Conference short paper
Pleurospermum austriacum Hoffm.
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
Apiales
Apiaceae
Pleurospermum
Pleurospermum austriacum

description: Ligusticum austriacum Linnaeus, Species Plantarum 1: 250. 1753.
"Habitat in Austriae alpinis." RCN: 2012.
 Lectotype (Reduron in Jonsell & Jarvis in Nordic J. Bot. 22: 84. 2002): Herb. Burser VIII: 66 (UPS).
 Current name: Pleurospermum austriacum (L.) Hoffm. (Apiaceae).
description: Published as part of Jarvis, Charlie, 2007, Chapter 7: Linnaean Plant Names and their Types (part L), pp. 610-650 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 631, DOI: 10.5281/zenodo.291971
When Pine Cones Fall in Perfect Circles
Creators: name: Eotvos, Melody
Publisher: name: The University of Melbourne
Year: 2025
Subjects: classificationCode: 360302
subject: Music composition and improvisation

description: When pine cones fall in perfect circles was composed for Ken Murray, in response to Manuel de Falla’s Homenaje: Le Tombeau de Claude Debussy.
Striatal interneurons: causes of or cures for movement disorders?
Creators: name: Aryn Gittis
Publisher: name: Carnegie Mellon University
Year: 2012
Subjects: subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences

description: Imagine one day you notice a tremor and can't walk easily anymore. Your doctor tells you that you have Parkinson's disease and gives you levodopa, a 60-year-old treatment that temporarily relieves your symptoms. But over time, the medication makes you impulsive, and after a few years, your symptoms return. The doctor tells you that you have developed resistance to your medicine and that nothing else is likely to work—your condition continues to degenerate. Sadly, this is the reality for millions of Americans suffering from Parkinson's disease.
Additional file 1 of Human adipose tissue-derived stem cell extracellular vesicles attenuate ocular hypertension-induced retinal ganglion cell damage by inhibiting microglia- TLR4/MAPK/NF-κB proinflammatory cascade signaling
Creators: name: Ji, Shangli
name: Peng, Yanfang
name: Liu, Jian
name: Xu, Pang
name: Tang, Shibo
Publisher: name: figshare
Year: 2024
Subjects: subject: Space Science
subject: Medicine
subject: Cell Biology
subject: Molecular Biology
subject: Neuroscience
subject: Physiology
subject: FOS: Biological sciences
subject: Pharmacology
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Cancer
subject: Infectious Diseases
subject: FOS: Health sciences

description: Supplementary Material 1
Neutrino masses in R-parity violating supersymmetric models
Creators: name: Grossman, Yuval
name: Rakshit, Subhendu
Publisher: name: arXiv
Year: 2003
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: We study neutrino masses and mixing in R-parity violating supersymmetric models with generic soft supersymmetry breaking terms. Neutrinos acquire masses from various sources: Tree level neutrino--neutralino mixing and loop effects proportional to bilinear and/or trilinear R-parity violating parameters. Each of these contributions is controlled by different parameters and have different suppression or enhancement factors which we identified. Within an Abelian horizontal symmetry framework these factors are related and specific predictions can be made. We found that the main contributions to the neutrino masses are from the tree level and the bilinear loops and that the observed neutrino data can be accommodated once mild fine-tuning is allowed.
description: 18 pages; minor typos corrected. To be published in Physical Review D
Quantum renormalization group of XY model in two dimensions
Creators: name: Usman, M.
name: Ilyas, Asif
name: Khan, Khalid
Publisher: name: arXiv
Year: 2017
Subjects: subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: We investigate entanglement and quantum phase transition (QPT) in a two-dimensional Heisenberg anisotropic spin-1/2 XY model, using quantum renormalization group method (QRG) on a square lattice of $N\times N$ sites. The entanglement through geometric average of concurrences is calculated after each step of the QRG. We show that the concurrence achieves a non zero value at the critical point more rapidly as compared to one-dimensional case. The relationship between the entanglement and the quantum phase transition is studied. The evolution of entanglement develops two saturated values corresponding to two different phases. We compute the first derivative of the concurrence, which is found to be discontinuous at the critical point $γ=0$, and indicates a second-order phase transition in the spin system. Further, the scaling behaviour of the system is investigated by computing the first derivative of the concurrence in terms of the system size.
Kundmannia sicula
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
Apiales
Apiaceae
Kundmannia
Kundmannia sicula

description: Ligusticum balearicum Linnaeus, Mantissa Plantarum Altera: 218. 1771.
"Habitat in Balearibus; Romae." RCN: 2015.
 Neotype (Rosselló & Sáez in Collect. Bot. (Barcelona) 25: 13. 2000): Herb. Linn. No. 353.8 (LINN).
 Current name: Kundmannia sicula (L.) DC. (Apiaceae).
description: Published as part of Jarvis, Charlie, 2007, Chapter 7: Linnaean Plant Names and their Types (part L), pp. 610-650 in Order out of Chaos. Linnaean Plant Types and their Types, London :Linnaean Society of London in association with the Natural History Museum on pages 631-632, DOI: 10.5281/zenodo.291971
State space truncation with quantified errors for accurate solutions to discrete Chemical Master Equation
Creators: name: Cao, Youfang
name: Terebus, Anna
name: Liang, Jie
Publisher: name: arXiv
Year: 2017
Subjects: subject: Quantitative Methods (q-bio.QM)
subject: FOS: Biological sciences

description: The discrete chemical master equation (dCME) provides a general framework for studying stochasticity in mesoscopic reaction networks. Since its direct solution rapidly becomes intractable due to the increasing size of the state space, truncation of the state space is necessary for solving most dCMEs. It is therefore important to assess the consequences of state space truncations so errors can be quantified and minimized. Here we describe a novel method for state space truncation. By partitioning a reaction network into multiple molecular equivalence groups (MEG), we truncate the state space by limiting the total molecular copy numbers in each MEG. We further describe a theoretical framework for analysis of the truncation error in the steady state probability landscape using reflecting boundaries. By aggregating the state space based on the usage of a MEG and constructing an aggregated Markov process, we show that the truncation error of a MEG can be asymptotically bounded by the probability of states on the reflecting boundary of the MEG. Furthermore, truncating states of an arbitrary MEG will not undermine the estimated error of truncating any other MEGs. We then provide an error estimate for networks with multiple MEGs. To rapidly determine the appropriate size of an arbitrary MEG, we introduce an a priori method to estimate the upper bound of its truncation error, which can be rapidly computed from reaction rates, without costly trial solutions of the dCME. We show results of applying our methods to four stochastic networks. We demonstrate how truncation errors and steady state probability landscapes can be computed using different sizes of the MEG(s) and how the results validate out theories. Overall, the novel state space truncation and error analysis methods developed here can be used to ensure accurate direct solutions to the dCME for a large class of stochastic networks.
description: 41 pages, 6 figures