cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Balbagathis sylvatica Quate 1996
Creators: name: Ibáñez-Bernal, Sergio
name: Suárez-Landa, Teresa
name: Inecol
Publisher: name: Zenodo
Year: 2015
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Diptera
Psychodidae
Balbagathis
Balbagathis sylvatica

description: Balbagathis sylvatica Quate, 1996 Balbagathis sylvatica Quate, 1996: 32 (female description). Type locality: Costa Rica, Heredia, Estación de Biología La Selva. Balbagathis sylvatica: COLLANTES & MARTÍNEZ- ORTEGA (1999): 25 (Nicaragua records); QUATE & BROWN (2004): 66 (diagnosis); IBÁÑEZ- BERNAL (2008): 92 (Mexican record, description of male, male and female figures). Material examined. MEXICO: VERACRUZ: Municipality of Misantla, Paso Blanco (19°51′55.8″N, 96°52′23.4″W, 600 m a.s.l.), 25.ii.2008, Jurisdicción Sanitaria IV, col. Malaise trap, 3 JJ 1 ♀; 14.v.2008, Jurisdicción Sanitaria IV, col., CDC UV ligth trap, 5 JJ; 15.v.2008, Jurisdicción Sanitaria IV, col. Malaise trap, 6 JJ, same but with CDC UV ligth trap, 2 JJ 1 ♀, Municipality of Atzalan, Plan de Arroyos (19°53′41″N, 97°06′30″W, 820 m a.s.l.), 16.v.2008, Jurisdicción sanitaria IV, col. Malaise trap, 7 JJ 1 ♀; 2.ix.2008, Jurisdicción Sanitaria V, col. Malaise trap, 5JJ, CDC UV ligth trap, 1♀. Municipality of Vega de Alatorre, E. Carranza (19°57′59.8″N, 96°36′39.8″W, 60 m a.s.l.), 13.v.2008, Jurisdicción Sanitaria IV, col. Malaise trap, 1J. Municipality of Teocelo, Texin (19°22′0.2.2″N, 97°00′04.6″W, 1260 m a.s.l.), 12.ii.2008, Jurisdicción Sanitaria V, col., Malaise trap, 2 JJ; 13.v.2008, Jurisdicción Sanitaria V, col., Malaise trap, 1 J; same but 14.v.2008, 1 J. All specimens are deposited in the Psychodidae collection of Instituto de Ecología, A. C., Xalapa, Veracruz, Mexico. Remarks. IBÁÑEZ- BERNAL (2008) erroneously indicated 1994, instead of 1996 as the date of description of Balbagathis sylvatica. In all specimens studied here, the hypandrium is apparently a very narrow plate, just as a band, and the posterior reinforcement projections are free and pointed.
description: Published as part of Ibáñez-Bernal, Sergio, Suárez-Landa, Teresa & Inecol, 2015, Balbagathis janjezeki sp. nov., a new species of moth fly from Mexico (Diptera: Psychodidae: Psychodinae), pp. 485-494 in Acta Entomologica Musei Nationalis Pragae 55 (2) on page 493, DOI: 10.5281/zenodo.5372683
description: {"references": ["QUATE L. W. 1996: Preliminary taxonomy of Costa Rican Psychodidae (Diptera), exclusive of Phlebotominae. Revista de Biologia Tropical 44 (Suppl. 1): 1 - 81.", "QUATE L. W. & BROWN B. V. 2004. Revision of Neotropical Setomimini (Diptera: Psychodidae: Psychodinae). Contributions in Science, Natural History Museum of Los Angeles County 500: 1 - 117."]}
Failure of protection of Majorana based qubits against decoherence
Creators: name: Budich, Jan Carl
name: Walter, Stefan
name: Trauzettel, Bjoern
Publisher: name: arXiv
Year: 2011
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: Qubit realizations based on Majorana bound states have been considered promising candidates for quantum information processing which is inherently inert to decoherence. We put the underlying general arguments leading to this conjecture to the test from an open quantum system perspective. It turns out that, from a fundamental point of view, the Majorana qubit is as susceptible to decoherence as any local paradigm of a qubit.
description: Published version
title: Creation of Bioinformatics Approaches to Understand Host-Pathogen Molecular Mimicry
Creators: name: Rich, Kaylee Dawn
Publisher: name: Graduate Studies
Year: 2024
Subjects: subject: bioinformatics
subject: protein interactions
subject: host-pathogen interactions
subject: parasitology
subject: infectious disease
subject: autoimmunity
subject: pathogenicity
subject: molecular mimicry
subject: mycobacteria
subject: tuberculosis
subject: Bioinformatics
subject: FOS: Computer and information sciences

description: Imitation is not the sincerest form of flattery; for some it is the key to survival. Across phyla, pathogens imitating aspects of their host is crucial to their continued survival and proliferation. Also called molecular mimicry, imitation of host biomolecules has been observed to target a wide range of processes, including host signaling pathways and the immune system. Identification of molecular mimicry can provide insights into pathogen virulence and pathogenicity. Additionally, in silico detection methods can predict currently unknown host-pathogen interactions. Here, I describe my development of a bioinformatic method for mimicry detection using protein sequence data, with the ultimate aim to further our collective understanding of molecular mimicry. In Chapter 2, I resurrected and improved upon a bioinformatic k-mer based mimicry detection method, which I assessed on 32 human-infecting pathogens. During my assessment, I exposed potential concerns with the method and recommended avenues for further improvement. Chapter 3 describes my critical evaluation of each step in the pipeline and subsequent development of mimicDetector, a new pipeline for molecular mimicry identification. During my evaluation, I assessed the performance of five protein search tools with two amino acid substitution scoring matrices on varying query lengths. From these results, I determined the combination best suited to mimicry detection and implemented a new filtering method which better assesses similarity between pathogen and host protein sequences. Lastly, in Chapter 4, I applied mimicDetector to a focused investigation of the causative agent of human tuberculosis, Mycobacterium tuberculosis (Mtb). Among my predicted mimics were potentially novel Mtb-human protein interactions as well as a protein frequently implicated in Mtb molecular mimicry. My investigation highlights strategies used by Mtb to subvert host defenses and provides insight into the role mimics play in pathogenicity and virulence.
Self-Care Day Online Session: Self-Care Show-and-Tell
Creators: name: Schinke, Steven Paul
name: Marquart, Matthea S.
Publisher: name: Columbia University
Year: 2018
Subjects: Mental health
Self-care, Health
Show-and-tell presentations
College students

description: In this online session, Steven Schinke and Matthea Marquart host an informal Self-care show-and-tell via webcam and mic. Participants brought a photo, object, or web link that represents something they enjoy for self-care, to share with their CSSW Online Campus community colleagues. This is a Workshop for Columbia University School of Social Work’s Self-Care Day on October 22, 2018.
Sommerfeld-Enhanced Annihilation in Dark Matter Substructure: Consequences for Constraints on Cosmic-Ray Excesses
Creators: name: Slatyer, Tracy R.
name: Toro, Natalia
name: Weiner, Neal
Publisher: name: arXiv
Year: 2011
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: Cosmology and Nongalactic Astrophysics (astro-ph.CO)
subject: FOS: Physical sciences

description: In models of dark matter (DM) with Sommerfeld-enhanced annihilation, where the annihilation rate scales as the inverse velocity, N-body simulations of DM structure formation suggest that the local annihilation signal may be dominated by small, dense, cold subhalos. This contrasts with the usual assumption of a signal originating from the smooth DM halo, with much higher velocity dispersion. Accounting for local substructure modifies the parameter space for which Sommerfeld-enhanced annihilating DM can explain the PAMELA and Fermi excesses. Limits from the inner galaxy and the cosmic microwave background are weakened, without introducing new tension with substructure-dependent limits, such as from dwarf galaxies or isotropic gamma-ray studies. With substructure, previously excluded parameter regions with mediators of mass ~1-200 MeV are now easily allowed. For O(MeV) mediators, subhalos in a specific range of host halo masses may be evaporated, further suppressing diffuse signals without affecting substructure in the Milky Way.
description: 17 pages, 7 figures. v2 adds the KITP preprint number and a comment on accelerator searches for light gauge bosons, v3 modifies title and text for clarity, accepted by PRD
Cyrtomaia murrayi Miers 1885
Creators: name: Froglia, Carlo
name: Clark, Paul F.
Publisher: name: Zenodo
Year: 2011
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Malacostraca
Decapoda
Inachidae
Cyrtomaia
Cyrtomaia murrayi

description: Cyrtomaia murrayi Miers 1885: 588, fig. 196; 1886: 15, pl. III, fig. 1.
 Remarks. The subsequent selection of the type species for Cyrtomaia, made by Guinot & Richer de Forges (1982) (see Ng et al. 2008), has to be regarded as a case of " type fixation overlooked" (Article 70.2, ICZN 1999) because Miers (1885: 588) wrote “... I have designated Cyrtomaia murrayi, a new genus and species (see fig. 196) …”. This statement by Miers for a work published before 1931 is deemed to be an original designation (Article 68.2.1, ICZN 1999).
 Valid as Cyrtomaia murrayi Miers, 1885.
description: Published as part of Froglia, Carlo & Clark, Paul F., 2011, The forgotten Narrative of H. M. S. Challenger and the implications for decapod nomenclature, pp. 45-56 in Zootaxa 2788 on page 51, DOI: 10.5281/zenodo.200635
Early care and education financing strategies: Research-to-policy resources
Creators: name: Lawrence, Sharmila M.
Publisher: name: Columbia University
Year: 2018
Subjects: Early childhood education--Economic aspects
Early childhood education--Government policy
Child care--Finance

description: This resource list includes resources on state and local financing strategies for early care and education, blending and braiding funding streams, and PFS/SIBs from 2012 to 2018.
title: Innovative Hardware Implementation for High-Speed HOM/BSM Analysis in a Commercially Viable Quantum Communication System
Creators: name: Ahadi, Amir
Publisher: name: Graduate Studies
Year: 2024
Subjects: subject: Quantum Communication System
subject: Engineering--Electronics and Electrical
subject: Optics

description: With quantum computing advancing, it is vital to safeguard communications from quantum computer threats. Quantum Key Distribution (QKD) emerged as a cutting-edge solution, utilizing quantum principles to establish secure communication channels. However, conventional QKD systems face vulnerabilities, leading to the development of advanced protocols such as Measurement Device Independent Quantum Key Distribution (MDI-QKD). This protocol, employing a time-reversed entanglement approach, enhances security and enables a multi-use quantum communication network. This research addresses the challenge of implementing MDI-QKD efficiently by introducing a novel electronic board designed for real-time processing of time-bin encoded qubits. As the electrical engineer on this interdisciplinary project, the focus is on creating a cost-effective board that seamlessly integrates into commercially viable MDI-QKD systems. The innovation lies in eliminating the need for expensive external hardware and software, making the technology more accessible. The project involves crafting a high-bandwidth logic-level design to handle ultra-fast signals with precision. The board must also synchronize seamlessly with other MDI-QKD components, contributing to the reliability and effectiveness of the quantum communication network. By providing an affordable means of conducting critical analyses, this research accelerates the integration of MDI-QKD technology into real-world applications, contributing to the establishment of a secure communication framework resilient to the evolving landscape of quantum computing.
Initial conditions for dipole evolution beyond the McLerran-Venugopalan model
Creators: name: Dumitru, Adrian
name: Petreska, Elena
Publisher: name: arXiv
Year: 2011
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: Nuclear Theory (nucl-th)
subject: FOS: Physical sciences

description: We derive the scattering amplitude N(r) for a QCD dipole on a dense target in the semi-classical approximation. We include the first subleading correction in the target thickness arising from ~ρ^4 operators in the effective action for the large-x valence charges. Our result for N(r) can be matched to a phenomenological proton fit by Albacete et al over a broad range of dipole sizes r and provides a definite prediction for the A-dependence for heavy-ion targets. We find a suppression of N(r) for finite A for dipole sizes a few times smaller than the inverse saturation scale, corresponding to a suppression of the classical bremsstrahlung tail.
description: 5 pages plus appendix and references; v2: corrected a few typos, to appear in Nucl. Phys. A
Asteroseismology as a way to calibrate Rossby number and gyrochronology relations for field stars
Creators: name: Corsaro, Enrico
Publisher: name: Zenodo
Year: 2023

description: In this talk I will discuss how asteroseismic-based results on stellar structure and evolution can be used to infer important properties on the stellar dynamics for a wide range of stars in the main sequence. In particular, I will show the recent results about the calibration of a relation to predict the stellar convective turnover time, hence its Rossby number, starting from our knowledge of the color index. This is a powerful relation that can be used to obtain insights on the dynamo action that operates inside the stars. In the remainder of the talk, I will present a preliminary attempt to calibrate gyrochronology relations using ages from stars in the field, and by comparing the result with one based on cluster stars. With the advent of the ESA PLATO mission we will have the opportunity to refine and improve these relations by exploiting a much larger sample of seismic stars that can be used for calibration and testing, hence to infer more reliable results for a wider range of stellar fundamental properties of e.g. mass, age, and metallicity.
title: Biochemical characterization of human dihydroxyacetone phosphate acyltransferase, the first step in ether lipid biosynthesis
Creators: name: Li, Victoria
Publisher: name: Graduate Studies
Year: 2024
Subjects: subject: Lipid metabolism
subject: Ether lipids
subject: Dihydroxyacetone phosphate acyltransferase
subject: DHAPAT
subject: GNPAT
subject: GPAT
subject: Plasmalogen
subject: Peroxisomes
subject: Lipid droplets
subject: Yeast
subject: Glycerophospholipids
subject: Biology--Molecular
subject: Biochemistry
subject: Biology

description: Ether lipids are a subclass of glycerophospholipids where an alkyl tail is attached to the sn-1 position of the glycerol backbone. They are found enriched in the central nervous system. Defects in ether lipid synthesis lead to severe human conditions including Zellweger syndrome and rhizomelic chrondrodysplasia punctata. The latter manifests with congenital cataracts, skeletal abnormalities, facial deformities, and high childhood mortality, underlining the critical role of the ether lipid biosynthesis. The first acylation step in the synthesis of ether lipids occurs in peroxisomes and is catalyzed by the enzyme dihydroxyacetonephosphate acyltransferase (DHAPAT EC2.3.1.42). DHAPAT has a peroxisomal targeting signal type 1 (PTS1) at the C-terminus, lacks predicted membrane domains or lipid binding motifs. A functional assay in yeast was devised where full length DHAPAT was able to support life of a double knockout yeast devoid of endogenous acyltransferases. This was dependent on DHAPAT activity and the presence of the residues encoded by the first three exons. Despite comparable expression levels to the wild type, a catalytically dead mutant failed to support life of the knockout yeast. Furthermore, an alternatively spliced variant lacking exon 2 (V2) also resulted in the inability to support life of double knockout yeast. Unexpectedly, full length DHAPAT localizes to both peroxisomes and lipid droplets (LDs) in yeast, while V2 localizes exclusively to peroxisomes. Interestingly, putative amphipathic helices (AHs) were identified within the region encoded by exons 2 and 3 which may aid in association with LDs. A systematic series of truncations in the first 146 amino acids revealed that the minimum sequence required for LD association relies in the region encoded by exon 3. A colorimetric DHAPAT activity assay was developed and validated by detecting activity of the full-length enzyme but not of the catalytically dead H162A mutant. Consistent with its failure to support the life of the double knockout yeast, no activity was detected for V2, at least in its soluble form. Insights from in silico modelling and non-reducing SDS-PAGE analysis support a role of the region encoded by exons 1-3 in dimerization of the enzyme. Together, these results indicate that the amino end of DHAPAT modulates its targeting priority to peroxisomes when the PTS1 signal is present and regulates its activity.
Measuring discursive influence across scholarship
Creators: name: Gerow, Aaron
name: Hu, Yuening
name: Boyd-Graber, Jordan
name: Blei, David Meir
name: Evans, James A.
Publisher: name: Columbia University
Year: 2018
Subjects: Learning and scholarship
Bibliographical citations
Scholarly publishing
Influence (Literary, artistic, etc.)

description: Assessing scholarly influence is critical for understanding the collective system of scholarship and the history of academic inquiry. Influence is multifaceted, and citations reveal only part of it. Citation counts exhibit preferential attachment and follow a rigid “news cycle” that can miss sustained and indirect forms of influence. Building on dynamic topic models that track distributional shifts in discourse over time, we introduce a variant that incorporates features, such as authorship, affiliation, and publication venue, to assess how these contexts interact with content to shape future scholarship. We perform in-depth analyses on collections of physics research (500,000 abstracts; 102 years) and scholarship generally (JSTOR repository: 2 million full-text articles; 130 years). Our measure of document influence helps predict citations and shows how outcomes, such as winning a Nobel Prize or affiliation with a highly ranked institution, boost influence. Analysis of citations alongside discursive influence reveals that citations tend to credit authors who persist in their fields over time and discount credit for works that are influential over many topics or are “ahead of their time.” In this way, our measures provide a way to acknowledge diverse contributions that take longer and travel farther to achieve scholarly appreciation, enabling us to correct citation biases and enhance sensitivity to the full spectrum of scholarly impact.
Platyonychus iridescens Miers 1885
Creators: name: Froglia, Carlo
name: Clark, Paul F.
Publisher: name: Zenodo
Year: 2011
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Malacostraca
Decapoda
Ovalipidae
Platyonychus
Platyonychus iridescens

description: Platyonychus iridescens Miers 1885: 588; 1886: 202, pl. XVII, fig. 2.
 Remarks. Yokoya (1933) assigned Platyonychus iridescens to Ovalipes Rathbun, 1898.
 Valid as Ovalipes iridescens (Miers, 1885).
description: Published as part of Froglia, Carlo & Clark, Paul F., 2011, The forgotten Narrative of H. M. S. Challenger and the implications for decapod nomenclature, pp. 45-56 in Zootaxa 2788 on page 51, DOI: 10.5281/zenodo.200635
Hydrodynamical wind on magnetized Accretion Flows with Convection
Creators: name: Abbassi, S.
name: Mosallanezhad, A.
Publisher: name: arXiv
Year: 2012
Subjects: subject: Astrophysics of Galaxies (astro-ph.GA)
subject: FOS: Physical sciences

description: The existence of outflow and magnetic field in the inner region of hot accretion flows have been confirmed by observations and numerical magnetohydrodynamic simulations (MHD). We present self-similar solutions for radiation inefficiently accretion flows (RIAF) around black holes in the presence of outflow and global magnetic field. The influence of outflow is taken into account by adopting a radius dependent of mass accretion rate $ \dot{M} = \dot{M}_{0}(r/r_{0})^{s} $ with $ s > 0 $. Also we consider convection through a mixing length formalism to calculate convection parameter $ α_{con} $. Moreover we consider the additional magnetic field parameters $ β_{r,φ,z}\big[= c^2_{r,φ,z}/(2 c^2_{s}) \big] $, where $ c^2_{r,φ,z} $ are the Alfv$\acute{e}$n sound speeds in three direction of cylindrical coordinate. Our numerical results show that by increasing all components of magnetic field, the surface density and rotational velocity increase although the sound speed and radial infall velocity of the disc decrease. Also we have found out that the existence of wind will lead to reduction of surface density as well as rotational velocity. Moreover the radial velocity, sound speed, advection parameter and the vertical thickness of the disc will increase when outflow becomes important in the radiation inefficiently accretion flow.
description: Acceptet for Publication in Research in Astronomy and Astrophysics
title: Now You See Me, Now You Don't
Creators: name: Gupta, Jyotirmoy
Publisher: name: Arts
Year: 2024
Subjects: subject: photography
subject: immigration
subject: marriage
subject: indian immigrants in canada
subject: gender roles in marriage
subject: Fine Arts

description: The project Now You See Me, Now You Don’t explores marriage through the lens of my own and my wife’s experiences as a newly married couple. Compounding the complexity of a new marriage we are also immigrants who have moved away from our homeland in hope of a better future. The project revolves around photographs of my wife, Kanika. By photographing my wife and elements of our marriage, I aim to make a more general statement about marriage and photography, and how photographers have approached this subject over time. This research paper addresses earlier photographic work where a male photographer has photographed his wife, as well as more recent work on marital relationships. My work aims to create a dialogue with the previous work and asks if it is possible for a male photographer to make images that are not voyeuristic or exploitative, and are, instead, more collaborative in nature. This research paper delves into my thought process and contextualizes the success and limitations of my work. I also discuss themes of immigration and transnational identity to give more context to the particularities of our marriage. This project challenged my photojournalistic approach and I explored how a gallery space can be used to add different layers of meaning to the work. Through this project I have realised that although photography is a valuable tool to understand other people in a better way, it can’t be an all-encompassing method to understand your partner. Photography can help one partner become more sensitive towards the other, but the image making has its limitations.
Interplay of epitaxial strain and rotations in PbTiO$_3$/PbZrO$_3$ superlattices from first principles
Creators: name: Blok, Jeroen L.
name: Rabe, Karin M.
name: Vanderbilt, David
name: Blank, Dave H. A.
name: Rijnders, Guus
Publisher: name: arXiv
Year: 2011
Subjects: subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: We present first-principles calculations of the structural phase behavior of the [1:1] \pzta\ superlattice and the \ptoa\ and \pzoa\ parent compounds as a function of in-plane epitaxial strain. A symmetry analysis is used to identify the phases and clarify how they arise from an interplay between different kinds of structural distortions, including out-of-plane and in-plane polar modes, rotation of oxygen octahedra around out-of-plane or in-plane axes, and an anti-polar mode. Symmetry-allowed intermode couplings are identified and used to elucidate the nature of the observed phase transitions. For the minimum-period [1:1] \pzta\ superlattice, we identify a sequence of three transitions that occur as the in-plane lattice constant is increased. All four of the phases involve substantial oxygen octahedral rotations, and an antipolar distortion is important in the high-tensile-strain phase. Inclusion of these distortions is found to be crucial for an accurate determination of the phase boundaries.
description: 8 pages, 4 figures
Citywide cluster randomized trial to restore blighted vacant land and its effects on violence, crime, and fear
Creators: name: Branas, Charles C.
name: South, Eugenia
name: Kondo, Michelle C.
name: Hohl, Bernadette C.
name: Bourgois, Philippe
name: Wiebe, Douglas J.
name: MacDonald, John M.
Publisher: name: Columbia University
Year: 2018
Subjects: Vacant lands
Crime prevention
Urban renewal--Social aspects
Urban renewal
Epidemiology

description: Vacant and blighted urban land is a widespread and potentially risky environmental condition encountered by millions of people on a daily basis. About 15% of the land in US cities is deemed vacant or abandoned, an area roughly the size of Switzerland. In a citywide cluster randomized controlled trial, we investigated the effects of standardized, reproducible interventions that restore vacant land on the commission of violence, crime, and the perceptions of fear and safety. Quantitative and ethnographic analyses were included in a mixed-methods approach to more fully test and explicate our findings. A total of 541 randomly sampled vacant lots were randomly assigned into treatment and control study arms; outcomes from police and 445 randomly sampled participants were analyzed over a 38-month study period. Participants living near treated vacant lots reported significantly reduced perceptions of crime (−36.8%, P < 0.05), vandalism (−39.3%, P < 0.05), and safety concerns when going outside their homes (−57.8%, P < 0.05), as well as significantly increased use of outside spaces for relaxing and socializing (75.7%, P < 0.01). Significant reductions in crime overall (−13.3%, P < 0.01), gun violence (−29.1%, P < 0.001), burglary (−21.9%, P < 0.001), and nuisances (−30.3%, P < 0.05) were also found after the treatment of vacant lots in neighborhoods below the poverty line. Blighted and vacant urban land affects people’s perceptions of safety, and their actual, physical safety. Restoration of this land can be an effective and scalable infrastructure intervention for gun violence, crime, and fear in urban neighborhoods.
Improvements on "Fast space-variant elliptical filtering using box splines"
Creators: name: Chaudhury, Kunal N.
name: Sanyal, Sebanti
Publisher: name: arXiv
Year: 2011
Subjects: subject: Computer Vision and Pattern Recognition (cs.CV)
subject: FOS: Computer and information sciences

description: It is well-known that box filters can be efficiently computed using pre-integrations and local finite-differences [Crow1984,Heckbert1986,Viola2001]. By generalizing this idea and by combining it with a non-standard variant of the Central Limit Theorem, a constant-time or O(1) algorithm was proposed in [Chaudhury2010] that allowed one to perform space-variant filtering using Gaussian-like kernels. The algorithm was based on the observation that both isotropic and anisotropic Gaussians could be approximated using certain bivariate splines called box splines. The attractive feature of the algorithm was that it allowed one to continuously control the shape and size (covariance) of the filter, and that it had a fixed computational cost per pixel, irrespective of the size of the filter. The algorithm, however, offered a limited control on the covariance and accuracy of the Gaussian approximation. In this work, we propose some improvements by appropriately modifying the algorithm in [Chaudhury2010].
description: 7 figures
Oxypleurodon stimpsoni Miers 1885
Creators: name: Froglia, Carlo
name: Clark, Paul F.
Publisher: name: Zenodo
Year: 2011
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Malacostraca
Decapoda
Epialtidae
Oxypleurodon
Oxypleurodon stimpsoni

description: Oxypleurodon stimpsoni Miers 1885: 588; 1886: 38, pl. VI, fig. 1.
 Remarks. Tavares (1991) in his revision of Oxypleurodon overlooked the valid description in Miers 1885.
 Valid as Oxypleurodon stimpsoni Miers, 1885.
description: Published as part of Froglia, Carlo & Clark, Paul F., 2011, The forgotten Narrative of H. M. S. Challenger and the implications for decapod nomenclature, pp. 45-56 in Zootaxa 2788 on page 51, DOI: 10.5281/zenodo.200635
Two-qubit gate operations in superconducting circuits with strong coupling and weak anharmonicity
Creators: name: Lü, Xin-You
name: Ashhab, S.
name: Cui, Wei
name: Wu, Rebing
name: Nori, Franco
Publisher: name: arXiv
Year: 2012
Subjects: subject: Quantum Physics (quant-ph)
subject: Superconductivity (cond-mat.supr-con)
subject: FOS: Physical sciences

description: We investigate theoretically the implementation of two-qubit gates in a system of two coupled superconducting qubits. In particular, we analyze two-qubit gate operations under the condition that the coupling strength is comparable to or even larger than the anharmonicity of the qubits. By numerically solving the time-dependent Schrödinger equation, we obtain the dependence of the two-qubit gate fidelity on the system parameters in the case of direct and indirect qubit-qubit coupling. Our numerical results can be used to identify the "safe" parameter regime for experimentally implementing two-qubit gates with high fidelity in these systems.
Inorganic phosphate, arsenate, and vanadate enhance exonuclease transcript cleavage by RNA polymerase by 2000-fold
Creators: name: Gottesman, Maxwell E.
name: Mustaev, Arkady
Publisher: name: Columbia University
Year: 2018
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Chemotaxonomy
subject: RNA--Synthesis
subject: RNA polymerases
subject: Phosphates
subject: Vanadates
subject: Arsenates

description: Inorganic Pi is involved in all major biochemical pathways. Here we describe a previously unreported activity of Pi. We show that Pi and its structural mimics, vanadate and arsenate, enhance nascent transcript cleavage by RNA polymerase (RNAP). They engage an Mg2+ ion in catalysis and activate an attacking water molecule. Pi, vanadate, and arsenate stimulate the intrinsic exonuclease activity of the enzyme nearly 2,000-fold at saturating concentrations of the reactant anions and Mg2+. This enhancement is comparable to that of specialized transcript cleavage protein factors Gre and TFIIS (3,000- to 4,000-fold). Unlike these protein factors, Pi and its analogs do not stimulate endonuclease transcript cleavage. Conversely, the protein factors only marginally enhance exonucleolytic cleavage. Pi thus complements cellular protein factors in assisting hydrolytic RNA cleavage by extending the repertoire of RNAP transcript degradation modes.
Gamma-expansion for a 1D Confined Lennard-Jones model with point defect
Creators: name: Hudson, Thomas
Publisher: name: arXiv
Year: 2012
Subjects: subject: Analysis of PDEs (math.AP)
subject: FOS: Mathematics
subject: 82B20, 70C20, 74B20, 74G65, 74Q99, 49J45

description: We compute a rigorous asymptotic expansion of the energy of a point defect in a 1D chain of atoms with second neighbour interactions. We propose the Confined Lennard-Jones model for interatomic interactions, where it is assumed that nearest neighbour potentials are globally convex and second neighbour potentials are globally concave. We derive the Γ-limit for the energy functional as the number of atoms per period tends to infinity and derive an explicit form for the first order term in a Γ-expansion in terms of an infinite cell problem. We prove exponential decay properties for minimisers of the energy in the infinite cell problem, suggesting that the perturbation to the deformation introduced by the defect is confined to a thin boundary layer.
description: 26 pages, 3 figures
Application of simulation techniques in development planning for caving methods
Creators: name: Li, Zhen
Publisher: name: University of British Columbia
Year: 2012

description: The mining industry globally is moving towards exploiting more mineral deposits by underground methods for several reasons. Large scale underground block/panel caving mining methods are becoming more popular due to the low operating costs associated with economies of scale. However, the planning for a caving mine is very challenging. Simulation techniques have been used successfully by many industries for a long time. They have proven to be valuable in assisting the mine planning process, forecasting the performance of modeled systems, and testing alternatives at very low cost. In this research, simulation techniques were applied in the planning phase of a panel caving mine. These techniques were based on the existing experience as well as new software technology development. A state-of-art mine development simulation software package, SimMine®, was used as a tool for this study. Oyu Tolgoi is a large copper-gold complex located in southern Mongolia. It contains the Hugo North deposit which will be extracted using the panel caving method. Pre-production development (PPD) will involve over 40 km of lateral development and 70,000 m³ of massive excavations. So the PPD time and cost will be significant. The global mining industry has only limited experience to ensure effectively the design and planning for such complex, large scale projects. A case study of the Hugo North Lift 1 PPD is the focus for the simulation outlined in this research thesis. A simulation model was developed for the PPD planning. This was found to more accurately predict long term lateral development and mass excavation rates and scheduled ventilation requirements. The process of simulation was significant in enabling the optimization of development planning and equipment selection. There appear to be considerable opportunities for simulation of such planning aspects in mining. This research aims to contribute to future software development that delivers more reliable and functional simulation tools for mining engineers. These should realize significant safety, financial and environmental advances through improved scheduling for PPD in the next generation of large, complex underground mines.
BET bromodomain proteins regulate enhancer function during adipogenesis
Creators: name: Brown, Jonathan D.
name: Feldman, Zachary B.
name: Doherty, Sean P.
name: Reyes, Jaime M.
name: Rahl, Peter B.
name: Lin, Charles Y.
name: Sheng, Quanhu
name: Duan, Qiong
name: Federation, Alexander J.
name: Kung, Andrew L.
name: Haldar, Saptarsi M.
name: Young, Richard A.
name: Plutzky, Jorge
name: Bradner, James E.
Publisher: name: Columbia University
Year: 2018
Subjects: Gene expression--Research
Genetic transcription
Proteins--Analysis
Genetics—Research
Molecular biology
Chromatin

description: Developmental transitions are guided by master regulatory transcription factors. During adipogenesis, a transcriptional cascade culminates in the expression of PPARγ and C/EBPα, which orchestrate activation of the adipocyte gene expression program. However, the coactivators controlling PPARγ and C/EBPα expression are less well characterized. Here, we show the bromodomain-containing protein, BRD4, regulates transcription of PPARγ and C/EBPα. Analysis of BRD4 chromatin occupancy reveals that induction of adipogenesis in 3T3L1 fibroblasts provokes dynamic redistribution of BRD4 to de novo super-enhancers proximal to genes controlling adipocyte differentiation. Inhibition of the bromodomain and extraterminal domain (BET) family of bromodomain-containing proteins impedes BRD4 occupancy at these de novo enhancers and disrupts transcription of Pparg and Cebpa, thereby blocking adipogenesis. Furthermore, silencing of these BRD4-occupied distal regulatory elements at the Pparg locus by CRISPRi demonstrates a critical role for these enhancers in the control of Pparg gene expression and adipogenesis in 3T3L1s. Together, these data establish BET bromodomain proteins as time- and context-dependent coactivators of the adipocyte cell state transition.
title: The Effects of Perceived Daily Stress on Spatial Orientation Skills
Creators: name: Townes, Parker
Publisher: name: Graduate Studies
Year: 2024
Subjects: subject: perceived stress
subject: navigation
subject: orientation
subject: cognitive map
subject: student
subject: young adult
subject: Psychology--Cognitive
subject: Psychology--Experimental

description: Daily perceptions of stress over time are thought to negatively impact structures in the brain that are essential to the ability of individuals to form cognitive maps. Cognitive map formation is the ability to create mental representations of the spatial layout of the external world and is necessary for spatial orientation. The objective of this study is to investigate how perceived daily experiences of stress are related to the ability of healthy young adults to form cognitive maps and their self-reported sense of direction. We recruited 145 healthy young adults between 18-25 years of age. We evaluated participants twice throughout the school semester on their perceived levels of stress, sense-of direction, and performance on cognitive map formation, spatial perspective taking ability, and mental spatial manipulation tasks. We performed analyses using a growth curve model with a within-subjects design. We included affect, adverse childhood experiences, sleep quality, and sex as moderators for each analysis. Results found no association between perceived stress and task performance or self-reported sense of direction. Outcomes were associated with sex and negative affect, where negative affect and females are associated with worse performance and worse perceptions of sense-of-direction. Perceptions of sense-of-direction associated with positive affect, where increased positive affect was associated with increased perceptions of sense-of-direction. Perceptions of sense-of-direction are also associated with adverse childhood experiences, where higher ratings on adverse childhood experiences were associated with decreased perceptions in sense-of-direction. This project provides insight into the effect that daily nonclinical stress has on the ability to form cognitive maps in healthy young adults. Further, this study helps to describe contributing factors leading to the natural variability observed in these cognitive processes between otherwise healthy individuals.
title: Making Sense of Praxis Within an Evolving Clinical Context: A Grounded Theory of Nursing Student Learning Transfer
Creators: name: Kane, Sandra Julie
Publisher: name: Graduate Studies
Year: 2024
Subjects: subject: Undergraduate nursing students
subject: Learning transfer
subject: Clinical learning experience
subject: Theory-to-Practice
subject: Nursing
subject: FOS: Health sciences
subject: Education--Adult and Continuing

description: Nursing curricula are challenged to align with the growing and developing body of nursing knowledge and adequately cover various knowledge areas, including pathophysiology, pharmacotherapeutics, physical health assessment, communication, psychomotor skill development, ethics, leadership, and clinical decision-making. Clinical learning experiences are also essential to nursing programs, allowing students to connect the different types of nursing knowledge they have learned. Through these experiences, nursing students develop their skill sets and knowledge base, preparing them to care for patients with diverse care needs. Understanding how nursing students transfer their classroom learning into clinical practice is essential, especially considering the evolving and expanding body of nursing knowledge. Nursing students must be well-prepared and knowledgeable to provide quality care to patients with varying care needs as nursing practices continue to advance and develop. Therefore, gaining insights into the strategies and processes that nursing students use to transfer learning can help ensure that nursing curricula meet the nursing field's demands. To shed light on this area of interest, I developed a grounded theory using a classic grounded theory methodology that helps explain the processes or strategies fourth-year baccalaureate nursing students use to transfer learning from the classroom into clinical practice. This research helps identify areas of improvement within nursing curricula, provides direction for implementing learning activities, and supports students in their learning experiences.
A re-evaluation of the Meso-Cenozoic thermo-tectonic evolution of Bogda Shan (Tian Shan, NW China) based on new basement and detrital apatite fission track thermochronology
Creators: name: He, Zhiyuan
name: Glorie, Stijn
name: Wang, Fujun
name: Zhu, Wenbin
name: Fonseca, Ana
name: Su, Wenbo
name: Zhong, Linglin
name: Zhu, Xin
name: De Grave, Johan
Publisher: name: Taylor & Francis
Year: 2022
Subjects: classificationCode: 59999
subject: Environmental Sciences not elsewhere classified
subject: Ecology
subject: FOS: Biological sciences
classificationCode: 69999
subject: Biological Sciences not elsewhere classified

description: Bogda Shan is a mountain belt located at the eastern extremity of the Chinese Tianshan and records a complex and debated exhumation history. Previous studies have reported a young Cenozoic thermal history for the exhumation of Bogda Shan, which is in conflict with the observation of preserved Mesozoic erosion surfaces in the area. This study re-evaluates the Meso-Cenozoic thermo-tectonic evolution of Bogda Shan using apatite fission track (AFT) thermochronology. Palaeozoic basement (meta-sandstone) samples collected from the northern and southwestern flanks of the mountain ranges reveal apparent Mesozoic AFT ages ranging from ~202 Ma to ~97 Ma. Inverse thermal history modelling results reveal slow to moderate basement cooling during the early Mesozoic, corresponding to relatively low levels of exhumation. This accounts for the preservation of low-relief Mesozoic peneplanation surfaces recognized at elevations of ~3500–4000 m. None of the presented AFT data and thermal history models show any evidence for significant deep Cenozoic exhumation. In the neighbouring Junggar Basin, a Middle Jurassic sandstone sample records partial resetting of the AFT system during the Cretaceous. This observation conflicts with previous data (from the same Jurassic strata) where complete resetting of the AFT clock during the Cenozoic was suggested. Furthermore, Lower Cretaceous and Palaeogene sediments from the Turpan-Hami Basin show non-reset detrital AFT age populations of ~197, ~135, and ~104 Ma, which are coincident with the main pulses of exhumation recorded in the Chinese North Tianshan. Based on a comprehensive summary of the published data, we argue for a Mesozoic building of the Bogda–Balikun–Harlik mountain chain in the eastern Chinese Tianshan. Subsequent Cenozoic exhumation must have been relatively modest at most (<2 km) as it was not recorded by AFT thermochronology.
Formation of the Oligocene manganese deposits of the Paratethyan basins: a review
Creators: name: Öztürk, Hüseyin
name: Bolton, Barrie
name: Kasapçı, Cem
name: Cansu, Zeynep
name: Hanilçi, Nurullah
Publisher: name: Taylor & Francis
Year: 2022
Subjects: subject: Physiology
subject: FOS: Biological sciences
classificationCode: 59999
subject: Environmental Sciences not elsewhere classified
subject: Ecology
subject: Marine Biology
subject: Inorganic Chemistry
subject: FOS: Chemical sciences

description: A series of early Oligocene Paratethyan manganese deposits occur in the shallow-marine sediments of the Maikop Series that surround the present-day Caspian Sea and Black Sea basins. These deposits are located either in former shallow-water seaways between the anoxic basins, where they typically occur as world-class deposits, or as much smaller deposits in shallow-water, shelf settings around the margins of the anoxic basins. The host rocks of the deposits are similar and are composed mainly of laminated marls, clays, and carbonates. The major-oxide compositions of the Paratethyan manganese deposits are similar and reveal a distinctive enrichment in Mn, Ca, and P, relative to Post-Archaean Australian Shale (PAAS). In addition, compared to the PAAS, the deposits typically show a trace element enrichment of Co, Ni, As, Ba, Sr, and strong depletion of Nb, Ta, Cr, Zr, Th, and Hf, which can be attributed to their similar processes of formation. Detrital-sourced elements of the Paratethyan deposits such as Nb, Ta, Cr, Zr, Th, Ti, and Hf are characteristically extremely low relative to the PAAS and indicate syn-sedimentary Mn-oxide and -carbonate deposition under conditions of low detrital input. Furthermore, a PAAS normalized positive Eu anomaly typically present in most deposits together with high contents of Co, Ni, As, Ba, and Sr in ores indicates a hydrothermal contribution into the basins. Besides the introduction of dissolved Mn and associated elements from rivers, this study shows that these elements may have been also discharged into the Paratethyan basins along the basin-margin growth faults. According to the geological and geochemical findings, Mn deposition is likely to have occurred from oceanic upwelling currents during periods of the high sea-level stand with syn-genetic precipitation of Mn-oxides and carbonates close to paleohighs between the deep anoxic basins.
Beam shaping using genetically optimized two-dimensional photonic crystals
Creators: name: Gagnon, Denis
name: Dumont, Joey
name: Dubé, Louis J.
Publisher: name: arXiv
Year: 2012
Subjects: subject: Optics (physics.optics)
subject: FOS: Physical sciences

description: We propose the use of two-dimensional photonic crystals with engineered defects for the generation of an arbitrary-profile beam from a focused input beam. The cylindrical harmonics expansion of complex-source beams is derived and used to compute the scattered wavefunction of a 2D photonic crystal via the multiple scattering method. The beam shaping problem is then solved using a genetic algorithm. We illustrate our procedure by generating different orders of Hermite-Gauss profiles, while maintaining reasonable losses and tolerance to variations in the input beam and the slab refractive index.