cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Accelerating agricultural research through interoperable genetic and phenotypic variation data
Creators: name: Tello-Ruiz, Marcela K
name: Wei, Sharon
name: Kumar, Vivek
name: Olson, Andrew
name: Harrison, Melanie L
name: Cezard, Timothee
name: Dyer, Sarah
name: Gladman, Nicholas
name: Ware, Doreen
Publisher: name: F1000 Research Limited
Year: 2025

description: Agriculture is a key component of the One Health Joint Plan of Action (OH JPA), a global initiative focused on developing sustainable solutions to address health threats. Our work supports the OH JPA pathway of data, evidence, information systems, and knowledge exchange. FAIR data standards are crucial for integrating genetic and phenotypic datasets, enabling comparisons, and providing broader insights. While these standards are well-established in biomedical research, they have only recently been adopted in agriculture.

Historically, agricultural data sharing relied on personal networks, requiring significant effort to clean and harmonize data, limiting collaboration. To improve this, we worked with the AgBioData Standards for Genetic Variation Working Group to evaluate practices and review data formats. We introduced rsIDs for genetic markers in the SorghumBase and Gramene databases, ensuring consistency across breeding lines and landraces, and partnered with germplasm repositories to implement standard biosample identifiers, thus enhancing interoperability across Ag data resources.

Our efforts show that data standards not only improve data sharing but also support re-analysis, and boost research visibility, collaboration, and impact.
RCA III -- Influence of Social Trends on Agricultural Natural Resources: Water Quality, Social Trends and Future Policy
Creators: name: Natural Resources Conservation Service
Publisher: name: Unknown
Year: 1997
Subjects: subject: Agricultural and Food Policy
subject: Environmental Economics and Policy
subject: Land Economics/Use
subject: Resource /Energy Economics and Policy
subject: water quality
subject: Conservation Reserve Program
subject: wetlands
subject: watershed management
subject: environmental policy
subject: 1995 Farm Bill
subject: Clean Water Act

description: Contents: Overview of the Symposium (Frank Clearfield and Steven E. Kraft); The Influence of Social and Agricultural Trends on Water Quality: Implications for Future Policies (Christopher L. Lant); Watershed Management to Address Agricultural Problems: Past, Present, and Future (Robert W. Adler)
description: This is part of a set of papers originally presented at the Symposium on Influence of Social Trends on Agricultural Natural Resources cosponsored by RCA and the Social Sciences Institute (NRCS) (May 31-June 2, 1995, Washington, D.C.) and now issued in the RCA Working Papers series.
Calibration strategy for the SPICA/SAFARI instrument
Creators: name: Shipman, Russell F.
name: Vandenbussche, Bart
name: Castillo-Dominguez, Edgar
name: Labiano, Alvaro
name: Jellema, Willem
name: Orlando, Angiola
Publisher: name: arXiv
Year: 2021
Subjects: subject: Instrumentation and Methods for Astrophysics (astro-ph.IM)
subject: FOS: Physical sciences

description: SPICA is a mid to far infra-red space mission to explore the processes that form galaxies, stars and planets. SPICA/SAFARI is the far infrared spectrometer that provides near-background limited observations between 34 and 230 micrometers. The core of SAFARI consists of 4 grating modules, dispersing light onto 5 arrays of TES detectors per module. The grating modules provide low resolution (250) instantaneous spectra over the entire wavelength range. The high resolution (1500 to 12000) mode is accomplished by placing a Fourier Transform Spectrometer (FTS) in front of the gratings. Each grating module detector sees an interferogram from which the high resolution spectrum can be constructed. SAFARI data will be a convolution of complex spectral, temporal and spatial information. Along with spectral calibration accuracy of <1%, a relative flux calibration of 1% and an absolute flux calibration accuracy of 10% are required. This paper will discuss the calibration strategy and its impact on the instrument design of SAFARI
Capacity Building at National Level: Organisational and Technical Issues of Archaeological Data Infrastructure in The Czech Republic
Creators: name: Novák, David
Publisher: name: Zenodo
Year: 2024

description: The Czech archaeological data infrastructure has changed radically in the last decade and is gradually catching up with advanced data repositories providing similar services abroad. The originally disparate environment based on intuitive approaches has been consolidated under the unified research infrastructure Archaeological Information System of the Czech Republic (AIS CR). Today, both individual datasets and related services are integrated in one place, but most importantly, the team responsible for managing and developing the infrastructure in a sustainable manner is involved.

The paper will focus on several aspects of the whole process of building and managing the AIS CR: organisational, i.e. what conditions had to be created in order for the process to be successfully launched and maintained; technical, i.e. how the operation and development of the server and software environments is ensured and what problems need to be solved in this area in the long term; impact, i.e. what effect the existence of the AIS CR has on the archaeological domain in the Czech Republic and where there are still gaps that need to be filled. The aim of the paper is mainly to highlight the key decisions and prerequisites leading to a sustainable and actively used infrastructure, but also to point out the dead-ends we have encountered in building AIS CR. The whole topic will be placed in the broader context of the implementation of the EOSC initiative in the Czech Republic, allowing for an interdisciplinary comparison of the position of Czech archaeology in terms of FAIR data management. It will also give an outlook on where the development of AIS CR will go in the coming years and what we see as possibilities in terms of moving the state of the art.

Abstract taken from the EAA 2024 Abstract Book:

30th EAA Annual Meeting (Rome, Italy 2024) - Abstract Book Names, titles and affiliations are reproduced as submitted by the session organisers and/or authors. Language and wording of titles and abstracts were not revised. Technical editing: Sára Tylšová, Magda Karabáš (EAA) Design and layout: Sára Tylšová, Magda Karabáš (EAA) Design - cover: Symposia srl Design - logo: Caterina Amendola European Association of Archaeologists Rome, August 2024 © European Association of Archaeologists, 2024 ISBN 978-80-88441-08-3 30th EAA Annual Meeting (Rome, 2024)

https://www.e-a-a.org/EAA2024/scientificprogramme
Η εγκληματικότητα στη Θεσσαλονίκη και ΜΜΕ:
Creators: name: Αγγουράκη, Εμμανουέλα Μιχαήλ
Publisher: name: Aristotle University of Thessaloniki
Year: 2012
Subjects: Εγκληματικότητα
Θεσσαλονίκη
Μέσα Μαζικής Ενημέρωσης
Τύπος
Τηλεόραση
Οικονομική κρίση
Crime
Thessaloniki
Media Type
Television
Crisis

description: Αντικείμενο της μεταπτυχιακής διατριβής με τον τίτλο "Η Εγκληματικότητα στη Θεσσαλονίκη & ΜΜΕ" αποτελεί η μελέτη - βάσει συγκεκριμένης μεθοδολογίας - του εγκληματικού φαινομένου στη Θεσσαλονίκη κατά την περίοδο της οικονομικής κρίσης. Συγκεκριμένα το υποθετικό ερώτημα το οποίο τίθεται προς διερεύνηση είναι εάν η έξαρση της εγκληματικότητας και η διάχυση της βίας στον κοινωνικό ιστό οφείλεται στην πρόσφατη οικονομική κρίση. Πρόκειται ακριβώς για τη μελέτη ενός κοινωνικού φαινομένου το οποίο προσεγγίζεται δια της μεθόδου της ανάλυσης περιεχομένου και των συνεντεύξεων. Δείγμα αποτελούν τα επίσημα στοιχεία της αστυνομίας με τα συμβάντα τα οποία έχουν τελεσθεί στη Θεσσαλονίκη κατά τις 23 πρώτες ημέρες του 2012. Επίσης, δείγμα αποτελούν τα δελτία ειδήσεων της ΕΤ3 καθώς και δημοσιεύματα της εφημερίδας Μακεδονία κατά το ίδιο χρονικό διάστημα προκειμένου να μελετηθεί το πώς το εγκληματικό φαινόμενο αποτυπώνεται στα ΜΜΕ. Πέραν της ποσοτικής μεθόδου της ανάλυσης περιεχομένου κρίθηκε σκόπιμη η επιπλέον διερεύνηση ποιοτικών στοιχείων που πλαισιώνουν το εγκληματικό φαινόμενο, η διεξαγωγή επομένως ημιδομημένων επιστημονικών συνεντεύξεων με άτομα τα οποία έχουν καθημερινή τριβή με το έγκλημα και μπορούν να συνεισφέρουν στη διεξαγωγή ασφαλέστερων συμπερασμάτων σχετικά με τη φύση, τα αίτια και τους παράγοντες που συμβάλουν στην έξαρση της εγκληματικότητας. Η εργασία εκπονήθηκε στο πλαίσιο του μεταπτυχιακού προγράμματος σπουδών του τμήματος Δημοσιογραφίας & ΜΜΕ με κατεύθυνση τα "Νέα Μέσα" με επιβλέπουσα καθηγήτρια την κ.Τέσσα Δουλκέρη.
description: Purpose of the Master thesis titled "The Crime of Thessaloniki & Media" is a study - based on a specific methodology - about the criminal phenomenon in Thessaloniki during the period of economic crisis. Specifically, the hypothetical question that arises is to investigate whether the upsurge in crime and the spread of violence in society is due to the recent economic crisis. This is precisely the study of a social phenomenon which is approximated by the method of content analysis and interviews. Sample by official police data with events that have been committed in Thessaloniki during the first 23 days of 2012. Also as sample is ET3 news and newspaper Macedonia during the same period in order to study how the criminal phenomenon is reflected in the media. Apart from the quantitative content analysis method was deemed appropriate to explore additional qualitative data that surround the criminal phenomenon, conducting scientific therefore semistructured interviews with people who have daily friction with crime and can help to conduct safer conclusions about the nature, causes and factors contributing to the surge in crime. The work was undertaken as part of the postgraduate program of the Department of Journalism & Media towards the "New Media" with supervising professor k.Tessa Doulkeri.
Experimental evidence of (M1+E2) mixed character of the 9.2 keV transition in $^{227}$Th and its consequence for spin-interpretation of low-lying levels
Creators: name: Kovalík, A.
name: Inoyatov, A. Kh.
name: Perevoshchikov, L. L.
name: Ryšavý, M.
name: Filosofov, . D. V.
name: Alexa, P.
name: Kvasil, J.
Publisher: name: arXiv
Year: 2021
Subjects: subject: Nuclear Experiment (nucl-ex)
subject: Nuclear Theory (nucl-th)
subject: FOS: Physical sciences

description: The 9.2 keV nuclear transition in $^{227}$Th populated in the $β$-decay of $^{227}$Ac was studied by means of the internal conversion electron spectroscopy. Its multipolarity was proved to be of mixed character M1+E2 and the spectroscopic admixture parameter $δ^2$(E2/M1)=0.695 $\pm$ 0.248 (|$δ$(E2/M1)|=0.834 $\pm$ 0.210) was determined. Nonzero value of $δ$(E2/M1) raises a question about the existing theoretical interpretation of low-lying levels of $^{227}$Th.
description: 14 pages, 3 figures; typo in abstract corrected
Recovery of nanodiamonds from dynamically shock-compressed graphite and hydrocarbon samples
Creators: name: Schuster, Anja Katharina
Publisher: name: Zenodo
Year: 2021
Subjects: nanodiamonds; recovery; laser-induced shock compression; laboratory astrophysics; warm dense matter; high energy density

description: Hydrocarbons are abundant in icy giant planets like Uranus and Neptune. Their interiors are governed by extreme conditions with pressures of hundreds of gigapascals and temperatures of thousands of kelvins. It is possible to generate such extreme conditions in materials on a nanosecond timescale via laser-driven shock compression in the laboratory. A simple representative of hydrocarbons for use in the laboratory is polystyrene (C8H8)n. The formation of nanodiamonds from laser-induced shock compression of polystyrene was demonstrated at the Linac Coherent Light Source (LCLS) via in situ X-ray diffraction (XRD). This technique is based on driving two time-delayed shock waves through the material, such that they overlap at the sample rear side. Subsequently, a rarefaction wave releases the material at hypervelocity. The goal of the current work is the physical capture, extraction and characterisation of those generated nanodiamonds to better understand their formation process. In a larger framework, the project pursues the long-standing goal in condensed matter physics to recover metastable structures that form under extreme pressure and temperature conditions. This work presents an analysis of in situ XRD data deducing estimates of nanodiamond nucleation rates relevant to planetary interiors observed in the above mentioned experiment at LCLS and compares them to the latest theoretical model. Furthermore, seven recovery experiments, among them four recovery-only campaigns, were designed, prepared and conducted with the support of our working group and an eighth one was designed and prepared. High speed recordings were obtained giving unprecedented insights into the dynamics of the hypervelocity ejecta cloud and its impact into the various catcher types made from different materials. First analysis campaigns including chemical procedures for sample preparation, Raman spectroscopy, X-ray diffraction, dynamic light scattering, scanning and transmission electron microscopy, and tomography were arranged and some performed. Various collaborations were initiated, that among others enabled the usage of state-of-the-art materials and diagnostics, access to other facilities and support through simulations. The thesis provides a solid foundation for further research taking on the challenging task of recovering the nanodiamonds formed via laser-induced shock compression of hydrocarbons. This research can have crucial implications for planetary interior models of the icy giant planets.
description: Dissertation to achieve the academic degree Doctor rerum naturalium. Handed in at Technische Universität Dresden.
Measurements of a quantum bulk acoustic resonator using a superconducting qubit
Creators: name: Chou, M. -H.
name: Dumur, É.
name: Zhong, Y. P.
name: Peairs, G. A.
name: Bienfait, A.
name: Chang, H. -S.
name: Conner, C. R.
name: Grebel, J.
name: Povey, R. G.
name: Satzinger, K. J.
name: Cleland, A. N.
Publisher: name: arXiv
Year: 2020
Subjects: subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: Phonon modes at microwave frequencies can be cooled to their quantum ground state using conventional cryogenic refrigeration, providing a convenient way to study and manipulate quantum states at the single phonon level. Phonons are of particular interest because mechanical deformations can mediate interactions with a wide range of different quantum systems, including solid-state defects, superconducting qubits, as well as optical photons when using optomechanically-active constructs. Phonons thus hold promise for quantum-focused applications as diverse as sensing, information processing, and communication. Here, we describe a piezoelectric quantum bulk acoustic resonator (QBAR) with a 4.88 GHz resonant frequency that at cryogenic temperatures displays large electromechanical coupling strength combined with a high intrinsic mechanical quality factor $Q_i \approx 4.3 \times 10^4$. Using a recently-developed flip-chip technique, we couple this QBAR resonator to a superconducting qubit on a separate die and demonstrate quantum control of the mechanics in the coupled system. This approach promises a facile and flexible experimental approach to quantum acoustics and hybrid quantum systems.
Does (TaSe4)2I really harbor an axionic charge density wave?
Creators: name: Sinchenko, A. A.
name: Ballou, R.
name: Lorenzo, J. E.
name: Grenet, Th.
name: Monceau, P.
Publisher: name: arXiv
Year: 2022
Subjects: subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: FOS: Physical sciences

description: A recent experimental work has reported an excess of the non-linear conductivity in the charge density wave (CDW) sliding mode of the quasi one-dimensional compound (TaSe4)2I, when a magnetic field is applied co-linearly to the electric field [Gooth et al., Nature 575, 315 (2019)]. This result has opened a conceptual approach, where the CDW gap in (TaSe4)2I is opened between Weyl fermions of opposite chirality with the assumption that this compound is a Weyl semi-metal in its undistorted high temperature phase. We report measurements in the sliding state of (TaSe4)2I performed in similar conditions. We have found no increase in the magnetoconductivity. In our attempts for understanding this unsettling discrepancy, we stress the specific nature of the Peierls transition in (TaSe4)2I and the strong electron-phonon coupling present in this compound. Given the lack of further evidence, we think that it is premature to assert that (TaSe4)2I is an axionic insulator.
description: 8 pages, 3 figures
Doubly Spinning Black Rings
Creators: name: Kudoh, Hideaki
Publisher: name: arXiv
Year: 2006
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: We study a method to solve stationary axisymmetric vacuum Einstein equations numerically. As an illustration, the five-dimensional doubly spinning black rings that have two independent angular momenta are formulated in a way suitable for fully nonlinear numerical method. Expanding for small second angular velocity, the formulation is solved perturbatively upto second order involving the backreaction from the second spin. The obtained solutions are regular without conical singularity, and the physical properties are discussed with the phase diagram of the reduced entropy vs the reduced angular momenta. Possible extensions of the present approach to constructing the higher dimensional version of black ring and the ring with the cosmological constant are also discussed.
description: 20 pages, 6 figures
Self-stabilization of Circular Arrays of Automata
Creators: name: Levin, Leonid A.
Publisher: name: arXiv
Year: 2006
Subjects: subject: Distributed, Parallel, and Cluster Computing (cs.DC)
subject: Discrete Mathematics (cs.DM)
subject: FOS: Computer and information sciences

description: [Gacs, Kurdiumov, Levin, 78] proposed simple one-dimensional cellular automata with 2 states. In an infinite array they are self-stabilizing: if all but a finite minority of automata are in the same state, the minority states disappear. Implicit in the paper was a stronger result that a sufficiently small minority of states vanish even in a finite circular array. The following note makes this strengthening explicit.
description: 2 pages
Absolute photoabsorption and photoionization studies of halogen containing molecules by dipole electron impact methods
Creators: name: Olney, Terry N.
Publisher: name: University of British Columbia
Year: 2009

description: Dipole (e,e) spectroscopy has been used to determine absolute photo-absorption oscillator strengths (cross-sections) for the discrete and continuum electronic transitions of CH₃F, CH₃CI, CH₃Br, CH₃I, and BrCN. These data have been obtained at low resolution (1 eV fwhm), spanning the visible to soft X-ray equivalent photon energy regions (4.5 to 450 eV), and at high resolution (0.05 to 0.15 eV fwhm), in the valence and inner shell (Br 3d; I 4d; C Is (BrCN); N Is) regions. The absolute photoabsorption oscillator strength scales were established using either the Thomas-Reiche-Kuhn sum-rule (S(0)) or an S(-2)-based sum-rule normalization technique. To confirm the global accuracy of the dipole (e,e) photoabsorption oscillator strength data, an assessment of the absolute scales of previously published dipole (e,e) photoabsorption spectra 51 atoms and small molecules is made by deriving static dipole polarizabilities using the S(-2) sum-rule. Alternative methods of absolute scale determination for photoabsorption spectra using S(-2)-based normalization with dipole polarizabilities are also considered. Various dipole oscillator strength sums S(u) (u=-l to -10) and L(u) (u= -1 to -6) are evaluated using the previously published, and presently reported, dipole (e,e) measure-ments. It is also shown that normal Verdet constants and values of the rotationally averaged C₆ (A,B) dispersion coefficients can be reliably obtained either directly from the measured oscillator strength spectra or from approximations which require only values of the dipole sums S(u) and L(u) reported here. Quantitative aspects of the molecular and dissociative photoionization are reported in he valence shells of CH₃F and CH₃C1, and the valence shells and low energy inner shells (Br 3d and I 4d) of CH₃Br, CH₃I and BrCN, have been studied using dipole (e,e-t-ion) spectroscopy. Time-of-flight mass spectroscopy was used to determine the absolute partial oscillator str- engths for the molecular and dissociative photoionization channels of the methyl halides and BrCN. In other work synchrotron radiation photoelectron spectroscopy measurements made by Dr. Cooper, Dr. Chan and Dr. Tan were used to determine the absolute partial photoionization oscillator strengths for the production of the electronic states of CH₃F+ , CH₃C1+ and CH₃Br+ . These measurements together were used to provide detailed quantitative in-formation on the dipole-induced breakdown pathways of the methyl halides and BrCN under the influence of VUV and soft X-ray radiation.
The Dressing Method as Non Linear Superposition in Sigma Models
Creators: name: Katsinis, Dimitrios
name: Mitsoulas, Ioannis
name: Pastras, Georgios
Publisher: name: arXiv
Year: 2020
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: Mathematical Physics (math-ph)
subject: Exactly Solvable and Integrable Systems (nlin.SI)
subject: FOS: Physical sciences

description: We apply the dressing method on the Non Linear Sigma Model (NLSM), which describes the propagation of strings on $\mathbb{R}\times \mathrm{S}^2$, for an arbitrary seed. We obtain a formal solution of the corresponding auxiliary system, which is expressed in terms of the solutions of the NLSM that have the same Pohlmeyer counterpart as the seed. Accordingly, we show that the dressing method can be applied without solving any differential equations. In this context a superposition principle emerges: The dressed solution is expressed as a non-linear superposition of the seed with solutions of the NLSM with the same Pohlmeyer counterpart as the seed.
description: 31 pages, 3 appendices
On Donaldson's flow of surfaces in a hyperkahler four-manifold
Creators: name: Song, Jian
name: Weinkove, Ben
Publisher: name: arXiv
Year: 2006
Subjects: subject: Differential Geometry (math.DG)
subject: FOS: Mathematics

description: We prove some basic properties of Donaldson's flow of surfaces in a hyperkahler 4-manifold. When the initial submanifold is symplectic with respect to one Kähler form and Lagrangian with respect to another, we show that certain kinds of singularities cannot form, and we prove a convergence result under a condition related to one considered by M.-T. Wang for the mean curvature flow.
description: 19 pages
RCA III -- Influence of Social Trends on Agricultural Natural Resources: Politics and the Environment
Creators: name: Natural Resources Conservation Service
Publisher: name: Unknown
Year: 1997
Subjects: Agricultural and Food Policy
Environmental Economics and Policy
Land Economics/Use
Resource /Energy Economics and Policy

description: Contents: Overview of the Symposium (Frank Clearfield and Steven E. Kraft); National Politics and Farm Policy: Musings from Washington (Jeffrey Zinn); Future Environmental Policy: The State Role (Sandra Batie); “Taking” the Taxpayer: Wetlands and Farm Subsidies in Perspective (Clark Williams); Environmental Justice (Sharon Nance).
description: This is part of a set of papers originally presented at the Symposium on Influence of Social Trends on Agricultural Natural Resources cosponsored by RCA and the Social Sciences Institute (NRCS) (May 31-June 2, 1995, Washington, D.C.) and now issued in the RCA Working Papers series.
Observation of Spin Wave Soliton Fractals in Magnetic Film Active Feedback Rings
Creators: name: Wu, Mingzhong
name: Kalinikos, Boris A.
name: Carr, Lincoln D.
name: Patton, Carl E.
Publisher: name: arXiv
Year: 2007
Subjects: subject: Other Condensed Matter (cond-mat.other)
subject: Pattern Formation and Solitons (nlin.PS)
subject: FOS: Physical sciences

description: The manifestation of fractals in soliton dynamics has been observed for the first time. The experiment utilized self-generated spin wave envelope solitons in a magnetic film based active feedback ring. At high ring gain, the soliton that circulates in the ring breathes in a fractal pattern. The corresponding power frequency spectrum shows a comb structure, with each peak in the comb having its own comb, and so on, to finer and finer scales.
description: 4 pages, 4 figures
Proactive Estimation of Occlusions and Scene Coverage for Planning Next Best Views in an Unstructured Representation
Creators: name: Border, Rowan
name: Gammell, Jonathan D.
Publisher: name: arXiv
Year: 2020
Subjects: subject: Robotics (cs.RO)
subject: FOS: Computer and information sciences

description: The process of planning views to observe a scene is known as the Next Best View (NBV) problem. Approaches often aim to obtain high-quality scene observations while reducing the number of views, travel distance and computational cost. Considering occlusions and scene coverage can significantly reduce the number of views and travel distance required to obtain an observation. Structured representations (e.g., a voxel grid or surface mesh) typically use raycasting to evaluate the visibility of represented structures but this is often computationally expensive. Unstructured representations (e.g., point density) avoid the computational overhead of maintaining and raycasting a structure imposed on the scene but as a result do not proactively predict the success of future measurements. This paper presents proactive solutions for handling occlusions and considering scene coverage with an unstructured representation. Their performance is evaluated by extending the density-based Surface Edge Explorer (SEE). Experiments show that these techniques allow an unstructured representation to observe scenes with fewer views and shorter distances while retaining high observation quality and low computational cost.
description: For a video of SEE++ go to https://www.youtube.com/watch?v=4r2Z85zccms . For an open-source version of SEE++ go to https://github.com/robotic-esp/see-public . Documentation can be found at https://robotic-esp.github.io/see-public
On solutions of Schrodinger and Dirac equations in spaces of constant curvature, spherical and elliptical models
Creators: name: Red'kov, V. M.
Publisher: name: arXiv
Year: 2006
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: Exact solutions of the Schrodinger and Dirac equations in generalized cylindrical coordinates of the 3-dimensional space of positive constant curvature, spherical model, have been obtained. It is shown that all basis Schrodinger's and Dirac's wave functions are finite, single-valued, and continuous everywhere in spherical space model S_{3}. The used coordinates (ρ, ϕ,z) are simply referred to Eiler's angle variables (α, β, γ), parameters on the unitary group SU(2), which permits to express the constructed wave solutions Ψ(ρ, phi,z) in terms of Wigner's functions $D_{mm'}^{j}(α, β, γ)$. Specification of the analysis to the case of elliptic, SO(3.R) group space, model has been done. In so doing, the results substantially depend upon the spin of the particle. In scalar case, the part of the Schrodinger wave solutions must be excluded by continuity considerations, remaining functions are continuous everywhere in the elliptical 3-space. The latter is in agrement with the known statement: the Wigner functions D_{mm'}^{j}(α, β, γ) at j =0,1,2,... make up a correct basis in SO(3.R) group space. For the fermion case, it is shown that no Dirac solutions, continuous everywhere in elliptical space, do exist. Description of the Dirac particle in elliptical space of positive constant curvature cannot be correctly in the sense of continuity adjusted with its topological structure.
description: 54 pages. Report to 13th International School & Conference "Foundation & Advances in Nonlinear Science", Eds.: Kuvshinov V.I., Krylov G.G., Minsk, 2006
Transitioning to new PDB IDs and PDBx/mmCIF format at the Protein Data Bank
Creators: name: Persikova, Irina
name: Feng, Zukang
name: Liang, Yuhe
name: Peisach, Ezra
name: Young, Jasmine Y
name: The Worldwide Protein Data Bank (WwPDB) Team
name: Burley, Stephen K
Publisher: name: F1000 Research Limited
Year: 2025

description: The Protein Data Bank (PDB), established in 1971 as the first open-access digital resource in biology, has grown from seven X-ray crystallographic structures to over 226,000 3D structures of biological macromolecules supporting research and education across various scientific fields, including fundamental biology, biomedicine, biotechnology, and energy sciences. The Worldwide Protein Data Bank (wwPDB, wwpdb.org) partnership includes five Full Members and one Associate Member, all committed to making structural biology data Findable, Accessible, Interoperable, and Reusable (FAIR).

Due to the rapid increase in structure depositions, the wwPDB anticipates exhausting the current four-character PDB IDs by 2028. To prepare for this milestone, the PDB is transitioning to extended IDs, formatted as "pdb_" followed by eight alphanumeric characters (e.g., pdb_10021abc). Once four-character PDB IDs are exhausted, new entries will only receive extended IDs and will be available exclusively in the PDBx/mmCIF format, which is flexible, extensible, and can accommodate 3D biostructures of any size and complexity.

PDB depositors, data users, software developers, and journals will be impacted by this change. Herein, we present a five-year transition plan aimed at facilitating the adoption of extended PDB IDs and the exclusive use of PDBx/mmCIF format data files. The presentation will include a guide to the extended PDB IDs and PDBx/mmCIF format, along with illustrative examples.

We will also outline our communication strategy for engaging user communities throughout this transition. Resources to support users will include FAQs, educational materials, and software tools. Key updates will be disseminated via presentations, flyers, and news releases. We invite meeting participants to contribute suggestions for promoting this initiative.

RCSB PDB is funded by the National Science Foundation (DBI-2321666), US Department of Energy (DE-SC0019749), National Cancer Institute, National Institute of Allergy and Infectious Diseases, National Institute of General Medical Sciences of the National Institutes of Health (R01GM157729).
Ανάλυση του μηχανισμού νατικαρκινικής δράσης της 7-βρωμο-ινδιρουβίνης-3’οξίμης (7-ΒΙΟ):
Creators: name: Φωτοπούλου, Αικατερίνη Βασιλείου
Publisher: name: Aristotle University of Thessaloniki
Year: 2012
Subjects: 7-ΒΙΟ
λευχαιμία
ινδιρουβίνη
indirubins
leukemia

description: Η 7-βρωμο-ινδιρουβίνη-3-οξίμη (7-ΒΙΟ), αποτελεί ημισυνθετικό παράγωγο της φυτικής προελεύσεως ινδιρουβίνης, μιας ένωσης με δράση κατά της χρόνιας μυελογενούς λευχαιμίας (CML). Στην παρούσα διπλωματική εργασία μελετήθηκε η αντικαρκινική δράση της 7-ΒΙΟ σε λευχαιμικά (Κ562, MEL) και μη λευχαιμικά νεοπλαστικά κύτταρα (143B, RD/TE-671, WEHI-13Var). Τα αποτελέσματα της μελέτης αυτής δείχνουν ότι η 7-ΒΙΟ a) ασκεί κυτταροτοξικότητα διαφορετικού βαθμού στις διάφορες κυτταρικές σειρές, β) σε υποτοξικές συγκεντρώσεις δρα επαγωγικά, αυξάνοντας την κυτταρική ανάπτυξη των λευχαιμικών κυττάρων, ενώ κάτι τέτοιο δεν παρατηρείται σε κύτταρα προερχόμενα από στερεούς, συμπαγείς όγκους. Στις ίδιες υποτοξικές συγκεντρώσεις, η 7-ΒΙΟ αυξάνει το αναγεννητικό δυναμικό (self renewal) των λευχαιμικών κυττάρων, γ) μειώνει την έκφραση των γονιδίων JAK-2 και STAT-3 στις λευχαιμικές κυτταρικές σειρές, ενώ επηρεάζει την έκφραση του γονιδίου GSK-3b με βάση διφασική κινητική στα λευχαιμικά κύτταρα, δ) επηρεάζει την έκφραση του γονιδίου GAPDH στους συμπαγείς όγκους. Αναφορικά με της δράση της 7-ΒΙΟ στα μιτοχόνδρια, αποδεικνύεται ότι η ένωση συσσωρεύεται εκεί και αυξάνει την ενζυμική δραστικότητα του τέταρτου συμπλόκου της αναπνευστικής αλυσίδας μεταφοράς ηλεκτρονίων, της οξειδάσης του κυτοχρώματος (COX), στους συμπαγείς όγκους. Τα προαναφερόμενα αποτελέσματα δείχνουν ότι η 7-ΒΙΟ ασκεί διαφορετικές φαρμακολογικές ενέργειες με περισσότερους του ενός μηχανισμούς δράσης επί των καρκινικών κυττάρων.
description: 7BIO (7-bromoindirubin-3′-oxime) is a semi-synthetic derivative of a natural product known for its antileukemic properties, indirubin. In this study, we investigated the spectrum of its activity in cultures of leukemic (K-562, MEL) and non-leukemic neoplastic (143B, RD/TE-671, WEHI-13Var) cell lines. Our results far indicate that 7-BIO a) exhibits a tissue-selective activity, as leukemic cells were comparatively more sensitive to 7BIO than cells originated from solid tumors, b) increases cell growth rates in conjunction with self renewal ability of leukemic cells when used at hypotoxic concentrations, c) decreases the expression of JAK-2 and STAT-3 genes in leukemic cell lines and affects the expression of GSK-3b gene on the basics of biphasic kinetics in K562 cells and d) affects the expression of GAPDH gene in cells originated from solid tumors. With regard to mitochondria and their function, our results far indicate that 7-BIO, when used at high concentrations in cell lines originated from solid tumors, accumulates to mitochondria and causes an increase at the enzymic activity of COX , the fourth complex of respiratory chain. Our results indicate that 7-BIO exhibits a combination of pharmacologic activities with more than one molecular mechanisms of action on cancer cells.
Supergap anomalies in cotunneling between N-S and between S-S leads via a small quantum dot
Creators: name: Mkhitaryan, V. V.
name: Raikh, M. E.
Publisher: name: arXiv
Year: 2008
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: Superconductivity (cond-mat.supr-con)
subject: FOS: Physical sciences

description: Cotunneling current through a resonant level coupled to either normal and superconducting or to two superconducting leads is studied for the domain of bias voltages, V, exceeding the superconducting gap, 2Δ. Due to the on-site repulsion in the resonant level, cotunneling of an electron is accompanied by creation of a quasiparticle in a superconducting lead. Energy conservation imposes a threshold for this inelastic transport channel: V_c=3Δfor N-S case and \tilde{V}_c=4Δfor the S-S case. We demonstrate that the behavior of current near the respective thresholds is nonanalytic, namely, δI^{in}(V)\propto (V-V_c)^{3/2}Θ(V-V_c) and δI^{in}(V) \propto (V-\tilde{V}_c)Θ(V-\tilde{V}_c). Stronger anomaly for the S-S leads is the consequence of the enhanced density of states at the edges of the gap. In addition, the enhanced density of states makes the threshold anomalies for two-electron cotunneling processes in the Coulomb-blockaded regions more pronounced than for the N-N leads.
description: 11 pages, 7 figures
Social Media Unrest Prediction during the {COVID}-19 Pandemic: Neural Implicit Motive Pattern Recognition as Psychometric Signs of Severe Crises
Creators: name: Johannßen, Dirk
name: Biemann, Chris
Publisher: name: arXiv
Year: 2020
Subjects: subject: Machine Learning (stat.ML)
subject: Machine Learning (cs.LG)
subject: FOS: Computer and information sciences

description: The COVID-19 pandemic has caused international social tension and unrest. Besides the crisis itself, there are growing signs of rising conflict potential of societies around the world. Indicators of global mood changes are hard to detect and direct questionnaires suffer from social desirability biases. However, so-called implicit methods can reveal humans intrinsic desires from e.g. social media texts. We present psychologically validated social unrest predictors and replicate scalable and automated predictions, setting a new state of the art on a recent German shared task dataset. We employ this model to investigate a change of language towards social unrest during the COVID-19 pandemic by comparing established psychological predictors on samples of tweets from spring 2019 with spring 2020. The results show a significant increase of the conflict indicating psychometrics. With this work, we demonstrate the applicability of automated NLP-based approaches to quantitative psychological research.
description: 8 pages
Are Radio Sources and Gamma Ray Bursts Luminal Booms?
Creators: name: Thulasidas, Manoj
Publisher: name: arXiv
Year: 2007
Subjects: subject: Astrophysics (astro-ph)
subject: FOS: Physical sciences

description: The softening of a Gamma Ray Burst (GRB) afterglow bears remarkable similarities to the frequency evolution in a sonic boom. At the front end of the sonic boom cone, the frequency is infinite, much like a GRB. Inside the cone, the frequency rapidly decreases to infrasonic ranges and the sound source appears at two places at the same time, mimicking the double-lobed radio sources. Although a "luminal" boom violates the Lorentz invariance and is therefore forbidden, it is tempting to work out the details and compare them with existing data. This temptation is further enhanced by the observed superluminality in the celestial objects associated with radio sources and some GRBs. In this article, we calculate the temporal and spatial variation of observed frequencies from a hypothetical luminal boom and show remarkable similarity between our calculations and current observations.
description: Accepted for publication in IJMP-D (International Journal of Modern Physics D). 16 pages and 10 figures
Using the MaizeGDB genome browser to evaluate gene model annotation quality and gain functional insights
Creators: name: Woodhouse, Margaret R.
name: Cannon, Ethalinda K.
name: Portwood III, John L.
name: Haley, Olivia C.
name: Hayford, Rita K.
name: Cortes-Tibbs, Laura
name: Gardiner, Jack M.
name: Lisch, Damon
name: Andorf, Carson
Publisher: name: F1000 Research Limited
Year: 2025

description: MaizeGDB’s genome browsers provide a suite of tools, data, and resources to enable users to evaluate gene model annotation quality and gain functional insights into maize genomics. MaizeGDB now has a set of Syntenome tracks for B73 version 5 that offer whole-genome alignments with other grasses and their lifted gene models to enable comparative analyses that support gene model validation and highlight conserved and diverged regions. These tracks include unmethylated regions, aligned protein fragments from the Maize Peptide Atlas, and confidence scores from protein structure predictions. Along with over 300 gene expression tracks, these datasets support a robust framework for both inter-species and cross-species comparisons. Additionally, protein structure alignments from AlphaFold and ESMFold, alongside full proteome alignments from over 20 species via UniProt and Phytozome, lend further validation and functional context. Alternative annotations from NCBI, Helixer, and Mikado offer confirmatory evidence, while transcriptional start site predictions from CAGE data refine the 5’ untranslated regions of gene model annotations. Functional insights are further enriched by curated annotations, including UniProt descriptions, Gene Ontology terms, AI-based predictions, and transcription factor annotations from Grassius. Pangenome and pan-gene annotations from the NAM founder genomes and other high-quality maize assemblies enable users to explore structural and functional diversity across maize lineages. Over 600 epigenetic and DNA-binding datasets, such as transcription factor binding sites, open chromatin regions, and histone modifications, add additional layers of regulatory context. The genome browser has over one thousand total tracks that also integrate tools for visualizing SNPs, INDELs, and large-scale variations, alongside forward genetics resources like UniformMu, BonnMu, and Ac/Ds insertions. Tight integration with gene model pages, BLAST tools, SNPVersity (a variant viewer), and PanEffect (a variant effect viewer) ensures seamless navigation and analysis. Together, these resources allow users to critically evaluate gene models, uncover functional insights, and advance maize genetics and genomics research. As a member of the AgBioData Consortium, MaizeGDB is committed to upholding FAIR (Findable, Accessible, Interoperable, and Reusable) data standards to support robust, open, and collaborative research.
Self-bound droplet clusters in laser-driven Bose-Einstein condensates
Creators: name: Zhang, Yong-Chang
name: Walther, Valentin
name: Pohl, Thomas
Publisher: name: arXiv
Year: 2020
Subjects: subject: Quantum Gases (cond-mat.quant-gas)
subject: Atomic Physics (physics.atom-ph)
subject: FOS: Physical sciences

description: We investigate a two-dimensional Bose-Einstein condensate that is optically driven via a retro-reflecting mirror, forming a single optical feedback loop. This induces a peculiar type of long-range atomic interaction with highly oscillatory behavior, and we show here how the sign of the underlying interaction potential can be controlled by additional optical elements and external fields. This additional tunability enriches the behavior of the system substantially, and gives rise to a surprising range of new ground states of the condensate. In particular, we find the emergence of self-bound crystals of quantum droplets with various lattice structures, from simple and familiar triangular arrays to complex superlattice structures and crystals with entirely broken rotational symmetry. This includes mesoscopic clusters composed of small numbers of quantum droplets as well as extended crystalline structures. Importantly, such ordered states are entirely self-bound and stable without any external in-plane confinement, having no counterpart to other quantum-gas settings with long-range atomic interactions.
description: 7 pages, 6 figures
An iron(III) phosphonate cluster containing a nonanuclear ring
Creators: name: Yao, H. C.
name: Wang, J. J.
name: Ma, Y. S.
name: Waldmann, O.
name: Du, W. X.
name: Song, Y.
name: Li, Y. Z.
name: Zheng, L. M.
name: Decurtins, S.
name: Xin, X. Q.
Publisher: name: arXiv
Year: 2006
Subjects: subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: This communication reports the first example of cyclic ferric clusters with an odd number of iron atoms capped by phosphonate ligands, namely, [Fe9(m-OH)7(m-O)2(O3PC6H9)8-(py)12]. The magnetic studies support a S = 1/2 ground state with an exchange coupling constant of about J = -30 K.
description: 3 pages, 3 figures
The Fate of the Universe: Dark Energy Dilution?
Creators: name: de la Macorra, A.
Publisher: name: arXiv
Year: 2007
Subjects: subject: Astrophysics (astro-ph)
subject: FOS: Physical sciences

description: We study the possibility that dark energy decays in the future and the universe stops accelerating. The fact thatthe cosmological observations prefer an equation of state of dark energy smaller than -1 can be a signal that dark energy will decay in the future. This conclusion is based in interpreting a w> a_o=1. In this scenario the universe ends up dominated by this other fluid, which could be matter, and the universe stops accelerating at some time in the near future.
description: 5 pages, 3 figures
A comparison by parametric and non-parametric approach: Brazilian homicide rates before and after statute of disarmament.
Creators: name: Raimondi, Ana Carolina
name: Raimondi, Antonio Marcos
Publisher: name: F1000 Research Limited
Year: 2019

description: One and a half million people were murdered between 1979 and 2017 in Brazil. In December, 2003, Brazilian federal government enacted the National Statute of Disarmament. Its regulation occurred in July, 2004. This law limited the ownership and use of firearms by citizens. It has been expected that this measure would reduce firearm murders.
The aim of this study is describing parametric and non-parametric test results on homicide rates in Brazil. Two periods were compared: BEFORE (1991-2003) and AFTER (2005-2017) Statute of Disarmament.
Theoretical analysis of energetic-ion-driven resistive interchange mode stabilization strategies using a Landau closure model
Creators: name: Varela, J.
name: Ohdachi, S.
name: Watanabe, K. Y.
name: Spong, D. A.
name: Garcia, L.
name: Seki, R.
Publisher: name: arXiv
Year: 2020
Subjects: subject: Plasma Physics (physics.plasm-ph)
subject: FOS: Physical sciences

description: The aim of the present study is to perform a theoretical analysis of different strategies to stabilize energetic-ion-driven resistive interchange mode (EIC) in LHD plasma. We use a reduced MHD for the thermal plasma coupled with a gyrofluid model for the energetic particles (EP) species. The hellically trapped EP component is introduced through a modification of the drift frequency to include their precessional drift. The stabilization trends of the 1/1 EIC observed experimentally with respect to the thermal plasma density and temperature are reproduced by the simulations, showing a reasonable agreement with the data. The LHD operation scenarios with stable 1/1 EIC are identified, leading to the stabilization of the 1/1 EIC if the thermal plasma density and temperature are above a given threshold. The 1/1 EIC are also stabilized if the rotational transform is modified in a way that the 1/1 rational surface is located further away than 0.9 times the normalized radius, or the magnetic shear in the plasma periphery is enhanced. Also, LHD discharges with large magnetic fields show a higher EIC destabilization threshold with respect to the thermal plasma density. If the perpendicular NBI deposition region is moved further inward than 0.875 times the normalized radius the 1/1 EIC are also stabilized. In addition, increasing the perpendicular NBI voltage such that the EP energy is higher than 30 keV stabilizes the 1/1 EIC. Moreover, Deuterium plasmas show a higher stability threshold for the 1/1 EIC than Hydrogen plasmas. The experimental data shows a larger time interval between EIC events as the power of the tangential NBI is increased providing that the perpendicular NBI power is at least 13 MW. This implies a stabilizing effect of the tangential NBI.
description: arXiv admin note: text overlap with arXiv:1904.01964
From star clusters to dwarf galaxies: The properties of dynamically hot stellar systems
Creators: name: Dabringhausen, J.
name: Hilker, M.
name: Kroupa, P.
Publisher: name: arXiv
Year: 2008
Subjects: subject: Astrophysics (astro-ph)
subject: FOS: Physical sciences

description: (Abridged) Objects with radii of 10 to 100 pc and masses in the range from 10^6 to 10^8 M_sun have been discovered during the past decade. These so-called ultra compact dwarf galaxies (UCDs) constitute a transition between classical star clusters and elliptical galaxies in terms of radii, relaxation times and V-band mass-to-light (M/L_V) ratios. Using new data, we find that the mass interval from 10^6 to 10^7 M_sun is of special interest, because within this range typical half-light radii and dynamical mass-to-light ratios begin to increase compared to globular clusters, the highest stellar densities are reached and typical median two-body relaxation times surpass a Hubble time. The M/L_V ratios of the UCDs turn out to be incompatible with the predictions from simple stellar population (SSP) models when using the canonical stellar initial mass function (IMF), although SSPs probably are good approximations to the real stellar populations in UCDs and the SSP models allow to account for metallicity effects on the M/L_V ratio. This provides evidence for the UCDs either having formed with an IMF different from the canonical one or containing dark matter. We emphasise that almost all pressure-supported stellar systems ranging from star clusters to massive elliptical galaxies have M/L_V ratios less than 10 M_sun/L_sun, and that only dSph satellite galaxies have M/L_V ratios greater than 100 M_sun/L_sun and therewith form exceptional systems.
description: 26 pages, 15 figures, accepted for publication in MNRAS. Minor changes in the text and updates in the reference list in the replaced version