cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Aegilops triuncialis Linnaeus 1753
Creators: name: Jarvis, Charlie
Publisher: name: Zenodo
Year: 2007
Subjects: Biodiversity
Taxonomy
Plantae
Tracheophyta
Liliopsida
Poales
Poaceae
Aegilops
Aegilops triuncialis

description: Aegilops squarrosa Linnaeus, Species Plantarum 2: 1051. 1753. "Habitat in Oriente. Tournefort." RCN: 7593. Lectotype (Bowden in Canad. J. Genet. Cytol. 8: 133. 1966): Herb. Linn. No. 1218.9 (LINN). Current name:  Aegilops triuncialis L. (Poaceae).
description: Published as part of Jarvis, Charlie, 2007, Chapter 7: Linnaean Plant Names and their Types (part A), pp. 252-342 in Order out of Chaos. Linnaean Plant Types and their Types, London :Linnaean Society of London in association with the Natural History Museum on page 265, DOI: 10.5281/zenodo.291971
MPEC 2023-Q23 : 2010 UY6
Creators: name: Minor Planet Center Staff
Publisher: name: The Minor Planet Center
Year: 2023
Subjects: subject: Small Solar System bodies
valueUri: http://astrothesaurus.org/uat/1469

description: The Minor Planet Electronic Circulars contain information on unusual minor planets, routine data on comets and natural satellites, and occasional editorial announcements.  They are published on behalf of Division F of the International Astronomical Union by the Minor Planet Center, Smithsonian Astrophysical Observatory, Cambridge, MA 02138, U.S.A.
A possible symplectic framework for Radon-type transforms
Creators: name: Cahen, Michel
name: Grouy, Thibaut
name: Gutt, Simone
Publisher: name: arXiv
Year: 2016
Subjects: subject: Symplectic Geometry (math.SG)
subject: FOS: Mathematics
subject: 53D05

description: Our project is to define Radon-type transforms in symplectic geometry. The chosen framework consists of symplectic symmetric spaces whose canonical connection is of Ricci-type. They can be considered as symplectic analogues of the spaces of constant holomorphic curvature in Kählerian Geometry. They are characterized amongst a class of symplectic manifolds by the existence of many totally geodesic symplectic submanifolds. We present a particular class of Radon type tranforms, associating to a smooth compactly supported function on a homogeneous manifold $M$, a function on a homogeneous space $N$ of totally geodesic submanifolds of $M$, and vice versa. We describe some spaces $M$ and $N$ in such Radon-type duality with $M$ a model of symplectic symmetric space with Ricci-type canonical connection and $N$ an orbit of totally geodesic symplectic submanifolds.
description: Conference presented at the XXIV International Fall Workshop on Geometry and Physics in Zaragoza in September 2015
A reinforcement learning approach for VQA validation: an application to diabetic macular edema grading
Creators: name: Fountoukidou, Tatiana
name: Sznitman, Raphael
Publisher: name: arXiv
Year: 2023
Subjects: subject: Computer Vision and Pattern Recognition (cs.CV)
subject: Artificial Intelligence (cs.AI)
subject: FOS: Computer and information sciences

description: Recent advances in machine learning models have greatly increased the performance of automated methods in medical image analysis. However, the internal functioning of such models is largely hidden, which hinders their integration in clinical practice. Explainability and trust are viewed as important aspects of modern methods, for the latter's widespread use in clinical communities. As such, validation of machine learning models represents an important aspect and yet, most methods are only validated in a limited way. In this work, we focus on providing a richer and more appropriate validation approach for highly powerful Visual Question Answering (VQA) algorithms. To better understand the performance of these methods, which answer arbitrary questions related to images, this work focuses on an automatic visual Turing test (VTT). That is, we propose an automatic adaptive questioning method, that aims to expose the reasoning behavior of a VQA algorithm. Specifically, we introduce a reinforcement learning (RL) agent that observes the history of previously asked questions, and uses it to select the next question to pose. We demonstrate our approach in the context of evaluating algorithms that automatically answer questions related to diabetic macular edema (DME) grading. The experiments show that such an agent has similar behavior to a clinician, whereby asking questions that are relevant to key clinical concepts.
description: 16 pages (+ 23 pages supplementary material)
Stabilized Time Series Expansions for High-Order Finite Element Solutions of Partial Differential Equations
Creators: name: Deeb, Ahmad
name: Dutykh, Denys
Publisher: name: arXiv
Year: 2024
Subjects: subject: Numerical Analysis (math.NA)
subject: FOS: Mathematics
subject: 41A58, 65M60, 76M10

description: Over the past decade, Finite Element Method (FEM) has served as a foundational numerical framework for approximating the terms of Time Series Expansion (TSE) as solutions to transient Partial Differential Equation (PDE). However, the application of high-order Finite Element (FE) to certain classes of PDEs, such as diffusion equations and the Navier-Stokes (NS) equations, often leads to numerical instabilities. These instabilities limit the number of valid terms in the series, though the efficiency of time series integration even when resummation techniques like the Borel-Padé-Laplace (BPL) integrators are employed. In this study, we introduce a novel variational formulation for computing the terms of a TSE associated with a given PDE using higher-order FEs. Our approach involves the incorporation of artificial diffusion terms on the left-hand side of the equations corresponding to each power in the series, serving as a stabilization technique. We demonstrate that this method can be interpreted as a minimization of an energy functional, wherein the total variations of the unknowns are considered. Furthermore, we establish that the coefficients of the artificial diffusion for each term in the series obey a recurrence relation, which can be determined by minimizing the condition number of the associated linear system. We highlight the link between the proposed technique and the Discrete Maximum Principle (DMP) of the heat equation. We show, via numerical experiments, how the proposed technique allows having additional valid terms of the series that will be substantial in enlarging the stability domain of the BPL integrators.
Aegilops triuncialis Linnaeus 1753
Creators: name: Jarvis, Charlie
Publisher: name: Zenodo
Year: 2007
Subjects: Biodiversity
Taxonomy
Plantae
Tracheophyta
Liliopsida
Poales
Poaceae
Aegilops
Aegilops triuncialis

description: Aegilops triuncialis Linnaeus, Species Plantarum 2: 1051. 1753, typ. cons. "Habitat in Monspelii, Massiliae, Smyrnae aridis." RCN: 7592. Conserved type (Bowden in Canad. J. Bot. 37: 675. 1959): Löfling 701 β, Herb. Linn. No. 1218.8 (LINN). Generitype of Aegilops Linnaeus, nom. cons. Current name:  Aegilops triuncialis L. (Poaceae). Note: Aegilops triuncialis, with the type designated by Bowden, was proposed as conserved type of the genus by Jarvis (in Taxon 41: 555. 1992). This was eventually approved by the General Committee (see review of the history of this proposal by Barrie, l.c. 55: 795-796. 2006).
description: Published as part of Jarvis, Charlie, 2007, Chapter 7: Linnaean Plant Names and their Types (part A), pp. 252-342 in Order out of Chaos. Linnaean Plant Types and their Types, London :Linnaean Society of London in association with the Natural History Museum on page 265, DOI: 10.5281/zenodo.291971
Aeginetia indica Linnaeus 1753
Creators: name: Jarvis, Charlie
Publisher: name: Zenodo
Year: 2007
Subjects: Biodiversity
Taxonomy
Plantae
Tracheophyta
Magnoliopsida
Lamiales
Orobanchaceae
Aeginetia
Aeginetia indica

description: Aeginetia indica Linnaeus, Species Plantarum 2: 632. 1753. "Habitat in Malabaria." RCN: 4595. Replaced synonym of: Orobanche aeginetia L. (1763), nom. illeg. Lectotype (Parnell in Thal Forest Bull., Bot. 29: 73. 2001): [icon] " Tsjem-cumulu" in Rheede, Hort. Malab. 11: 97, t. 47. 1692. Generitype of Aeginetia Linnaeus. Current name:  Aeginetia indica L. (Orobanchaceae).
description: Published as part of Jarvis, Charlie, 2007, Chapter 7: Linnaean Plant Names and their Types (part A), pp. 252-342 in Order out of Chaos. Linnaean Plant Types and their Types, London :Linnaean Society of London in association with the Natural History Museum on page 265, DOI: 10.5281/zenodo.291971
Sensitivity Analysis and Statistical Convergence of a Saltating Particle Model
Creators: name: Maldonado, S.
name: Borthwick, A. G. L.
Publisher: name: arXiv
Year: 2016
Subjects: subject: Fluid Dynamics (physics.flu-dyn)
subject: FOS: Physical sciences

description: Saltation models provide considerable insight into near-bed sediment transport. This paper outlines a simple, efficient numerical model of stochastic saltation, which is validated against previously published experimental data on saltation in a channel of nearly horizontal bed. Convergence tests are systematically applied to ensure the model is free from statistical errors emanating from the number of particle hops considered. Two criteria for statistical convergence are derived; according to the first criterion, at least $10^3$ hops appear to be necessary for convergent results, whereas $10^4$ saltations seem to be the minimum required in order to achieve statistical convergence in accordance with the second criterion. Two empirical formulae for lift force are considered: one dependent on the slip (relative) velocity of the particle multiplied by the vertical gradient of the horizontal flow velocity component; the other dependent on the difference between the squares of the slip velocity components at the top and bottom of the particle. The former is found to give more stable results. A parameter study indicates that the saltation length has a minimum value with increasing particle diameter (at non-dimensional $D_* \sim 12$) for a given transport stage. Variations in the friction coefficient and collision line level have negligible effect on the saltation statistics within the ranges considered. Regression equations are obtained for each of the saltation characteristics. Finally, the model is used to evaluate the bed load transport rate, which is in satisfactory agreement with common formulae based on flume data, especially when compared against other saltation-derived expressions.
description: Published in ASCE Journal of Hydraulic Engineering, J. Hydraul. Eng. 2014
Guidelines for Data Publication: Outputs from the PREPARDE project (public)SPM1.38, Fri 12 April, 12:15–13:15, R3
Creators: name: Callaghan, Sarah
name: Murphy, Fiona
name: Tedds, Jonathan
name: Kunze, John
name: Lawrence, Rebecca
name: Mayernik, Matthew
name: Whyte, Angus
name: Roberts, Timothy
Publisher: name: Zenodo
Year: 2013
Subjects: subject: data and information
subject: https://id.loc.gov/authorities/subjects/sh85040468.html

description: At this meeting, the PREPARDE project (http://www2.le.ac.uk/projects/preparde) will present draft guidelines for data publication processes and will solicit feedback on them from members of the community. These processes include peer-review of data, data repository accreditation and cross-linking and workflows for data publication.
description: Previously curated at: http://cedadocs.ceda.ac.uk/945/ Event type: conference. The publish date on this item was its original published date. This work was funded by: JISC; and, NERC. This item was not refereed before the publication Associated projects: PREPARDE Main files in this record: EGU2013_PREPARDE_SplinterMeeting.pdf Item originally deposited with Centre for Environmental Data Analysis (CEDA) document repository by Dr Sarah Callaghan. Transferred to CEDA document repository community on Zenodo on 2022-11-24
Perceptions on tailored messages from a values clarification tool: a mixed-methods study of older adults with cancer
Creators: name: Richardson, Daniel R.
name: Mhina, Carl
name: Cole, Amy C.
name: Mazur, Lukasz
name: Kwong, Elizabeth
name: King, Andy J.
Publisher: name: Frontiers
Year: 2024

description: The purpose of this study was to assess whether varying input communication factors impacted participants’ perceived confidence, motivation, and likelihood to act (i.e., share or discuss their preferences and values with their clinician or family/caregiver) when receiving tailored communication from a values-clarification tool. This study was conducted over a two-month period at the North Carolina Basnight Cancer Hospital. Patients with hematologic malignancies participated in evaluating three distinct messages that varied on three input communication factors. Results from this study indicate that most study participants preferred messages that were moderately direct, contained succinct question prompts, and that were empowering. Results also indicate that diverse perspectives and external influences may impact confidence and motivation toward discussing preferences with their clinicians. Our findings suggest the importance of validating the input communication factors within values-clarification tools before presenting results to patients and the need to evaluate potential disparities in patients’ participation toward discussing their preferences. Evidence from this study provides direction for future research efforts focused on improving shared decision-making among older adults.
Nonlinear waves in coherently coupled Bose-Einstein condensates
Creators: name: Congy, T.
name: Kamchatnov, A.
name: Pavloff, N.
Publisher: name: arXiv
Year: 2016
Subjects: subject: Quantum Gases (cond-mat.quant-gas)
subject: Pattern Formation and Solitons (nlin.PS)
subject: FOS: Physical sciences

description: We consider a quasi-one-dimensional two-component Bose-Einstein condensate subject to a coherent coupling between its components, such as realized in spin-orbit coupled condensates. We study how nonlinearity modifies the dynamics of the elementary excitations. The spectrum has two branches which are affected in different ways. The upper branch experiences a modulational instability which is stabilized by a long wave-short wave resonance with the lower branch. The lower branch is stable. In the limit of weak nonlinearity and small dispersion it is described by a Korteweg-de Vries equation or by the Gardner equation, depending on the value of the parameters of the system.
BEXIS2: A FAIR-aligned data management system for biodiversity, ecology and environmental data
Creators: name: Chamanara, Javad
name: Gaikwad, Jitendra
name: Gerlach, Roman
name: Algergawy, Alsayed
name: Ostrowski, Andreas
name: König-Ries, Birgitta
Publisher: name: Sofia : Pensoft Publishers
Year: 2021
Subjects: subject: biodiversity
subject: data lifecycle
subject: ecology
subject: environmental science
subject: FAIR data maturity model
subject: FAIR data principles
subject: open-source
subject: research data management
subject: 570
subject: 630

description: Obtaining fit-to-use data associated with diverse aspects of biodiversity, ecology and environment is challenging since often it is fragmented, sub-optimally managed and available in heterogeneous formats. Recently, with the universal acceptance of the FAIR data principles, the requirements and standards of data publications have changed substantially. Researchers are encouraged to manage the data as per the FAIR data principles and ensure that the raw data, metadata, processed data, software, codes and associated material are securely stored and the data be made available with the completion of the research.
The integer quantum Hall transition: an $S$-matrix approach to random networks
Creators: name: Topchyan, Hrant
name: Gruzberg, Ilya
name: Nuding, Win
name: Klümper, Andreas
name: Sedrakyan, Ara
Publisher: name: arXiv
Year: 2024
Subjects: subject: Disordered Systems and Neural Networks (cond-mat.dis-nn)
subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: Statistical Mechanics (cond-mat.stat-mech)
subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: In this paper we propose a new $S$-matrix approach to numerical simulations of network models and apply it to random networks that we proposed in a previous work 10.1103/PhysRevB.95.125414. Random networks are modifications of the Chalker-Coddington (CC) model for the integer quantum Hall transition that more faithfully capture the physics of electrons moving in a strong magnetic field and a smooth disorder potential. The new method has considerable advantages compared to the transfer matrix approach, and gives the value $ν\approx 2.4$ for the critical exponent of the localization length in a random network. This finding confirms our previous result and is surprisingly close to the experimental value $ν_{\text{exp}} \approx 2.38$ observed at the integer quantum Hall transition but substantially different from the CC value $ν_\text{CC} \approx 2.6$.
Phenotyping in the era of genomics: MaTrics—a digital character matrix to document mammalian phenotypic traits
Creators: name: Stefen, Clara
name: Wagner, Franziska
name: Asztalos, Marika
name: Giere, Peter
name: Grobe, Peter
name: Hiller, Michael
name: Hofmann, Rebecca
name: Jähde, Maria
name: Lächele, Ulla
name: Lehmann, Thomas
name: Ortmann, Sylvia
name: Peters, Benjamin
name: Ruf, Irina
name: Schiffmann, Christian
name: Thier, Nadja
name: Unterhitzenberger, Gabriele
name: Vogt, Lars
name: Rudolf, Matthias
name: Wehner, Peggy
name: Stuckas, Heiko
Publisher: name: Amsterdam [u.a.] : Elsevier
Year: 2021
Subjects: subject: Comparative genomics
subject: Discrete character states
subject: Hard tissue
subject: Museum specimens
subject: Numeric coding
subject: Visceral & life history traits
subject: 590

description: A new and uniquely structured matrix of mammalian phenotypes, MaTrics (Mammalian Traits for Comparative Genomics) in a digital form is presented. By focussing on mammalian species for which genome assemblies are available, MaTrics provides an interface between mammalogy and comparative genomics. MaTrics was developed within a project aimed to find genetic causes of phenotypic traits of mammals using Forward Genomics. This approach requires genomes and comprehensive and recorded information on homologous phenotypes that are coded as discrete categories in a matrix. MaTrics is an evolving online resource providing information on phenotypic traits in numeric code; traits are coded either as absent/present or with several states as multistate. The state record for each species is linked to at least one reference (e.g., literature, photographs, histological sections, CT scans, or museum specimens) and so MaTrics contributes to digitalization of museum collections. Currently, MaTrics covers 147 mammalian species and includes 231 characters related to structure, morphology, physiology, ecology, and ethology and available in a machine actionable NEXUS-format*. Filling MaTrics revealed substantial knowledge gaps, highlighting the need for phenotyping efforts. Studies based on selected data from MaTrics and using Forward Genomics identified associations between genes and certain phenotypes ranging from lifestyles (e.g., aquatic) to dietary specializations (e.g., herbivory, carnivory). These findings motivate the expansion of phenotyping in MaTrics by filling research gaps and by adding taxa and traits. Only databases like MaTrics will provide machine actionable information on phenotypic traits, an important limitation to genomics. MaTrics is available within the data repository Morph·D·Base (www.morphdbase.de).
Detecting the spatial quantum uncertainty of bosonic systems
Creators: name: Chille, Vanessa
name: Treps, Nicolas
name: Fabre, Claude
name: Leuchs, Gerd
name: Marquardt, Christoph
name: Aiello, Andrea
Publisher: name: arXiv
Year: 2016
Subjects: subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: We present the quantum theory of the measurement of bosonic particles by multipixel detectors. For the sake of clarity, we specialize on beams of photons. We study the measurement of different spatial beam characteristics, as position and width. The limits of these measurements are set by the quantum nature of the light field. We investigate how both, detector imperfections and finite pixel size affect the photon counting distribution. An analytic theory for the discretized measurement scheme is derived. We discuss the results and compare them to the theory presented by Chille et al. in "Quantum uncertainty in the beam width of spatial optical modes," Opt. Express 23, 32777 (2015), which investigates the beam width noise independently of the measurement system. Finally, we present numerical simulations which furnish realistic and promising predictions for possible experimental studies.
Biocatalytic Degradation Efficiency of Postconsumer Polyethylene Terephthalate Packaging Determined by Their Polymer Microstructures
Creators: name: Wei, Ren
name: Breite, Daniel
name: Song, Chen
name: Gräsing, Daniel
name: Ploss, Tina
name: Hille, Patrick
name: Schwerdtfeger, Ruth
name: Matysik, Jörg
name: Schulze, Agnes
name: Zimmermann, Wolfgang
Publisher: name: Weinheim : Wiley-VCH
Year: 2019
Subjects: subject: crystallinity
subject: enzymatic degradation
subject: physical aging
subject: polyethylene terephthalate
subject: postconsumer packaging
subject: 500
subject: 600

description: Polyethylene terephthalate (PET) is the most important mass-produced thermoplastic polyester used as a packaging material. Recently, thermophilic polyester hydrolases such as TfCut2 from Thermobifida fusca have emerged as promising biocatalysts for an eco-friendly PET recycling process. In this study, postconsumer PET food packaging containers are treated with TfCut2 and show weight losses of more than 50% after 96 h of incubation at 70 °C. Differential scanning calorimetry analysis indicates that the high linear degradation rates observed in the first 72 h of incubation is due to the high hydrolysis susceptibility of the mobile amorphous fraction (MAF) of PET. The physical aging process of PET occurring at 70 °C is shown to gradually convert MAF to polymer microstructures with limited accessibility to enzymatic hydrolysis. Analysis of the chain-length distribution of degraded PET by nuclear magnetic resonance spectroscopy reveals that MAF is rapidly hydrolyzed via a combinatorial exo- and endo-type degradation mechanism whereas the remaining PET microstructures are slowly degraded only by endo-type chain scission causing no detectable weight loss. Hence, efficient thermostable biocatalysts are required to overcome the competitive physical aging process for the complete degradation of postconsumer PET materials close to the glass transition temperature of PET.
Aegopodium podagraria Linnaeus 1753
Creators: name: Jarvis, Charlie
Publisher: name: Zenodo
Year: 2007
Subjects: Biodiversity
Taxonomy
Plantae
Tracheophyta
Magnoliopsida
Apiales
Apiaceae
Aegopodium
Aegopodium podagraria

description: Aegopodium podagraria Linnaeus, Species Plantarum 1: 265. 1753. "Habitat in Europa ad sepes inque pomariis." RCN: 2111. Lectotype (Reduron & Jarvis in Jarvis & al., Regnum Veg. 127: 15. 1993): Herb. Clifford: 107, Aegopodium 1 (BM-000558399). Generitype of Aegopodium Linnaeus. Current name:  Aegopodium podagraria L. (Apiaceae).
description: Published as part of Jarvis, Charlie, 2007, Chapter 7: Linnaean Plant Names and their Types (part A), pp. 252-342 in Order out of Chaos. Linnaean Plant Types and their Types, London :Linnaean Society of London in association with the Natural History Museum on page 265, DOI: 10.5281/zenodo.291971
MPEC 2023-Q24 : 2019 JK1
Creators: name: Minor Planet Center Staff
Publisher: name: The Minor Planet Center
Year: 2023
Subjects: subject: Small Solar System bodies
valueUri: http://astrothesaurus.org/uat/1469

description: The Minor Planet Electronic Circulars contain information on unusual minor planets, routine data on comets and natural satellites, and occasional editorial announcements.  They are published on behalf of Division F of the International Astronomical Union by the Minor Planet Center, Smithsonian Astrophysical Observatory, Cambridge, MA 02138, U.S.A.
Sharing EPR steering between sequential pairs of observers
Creators: name: Lv, Qiao-Qiao
name: Liang, Jin-Min
name: Wang, Zhi-Xi
name: Fei, Shao-Ming
Publisher: name: arXiv
Year: 2023
Subjects: subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: The recycling of quantum correlations has attracted widespread attention both theoretically and experimentally. Previous works show that bilateral sharing of nonlocality is impossible under mild measurement strategy and 2-qubit entangled state can be used to witness entanglement arbitrary many times by sequential and independent pairs of observers. However, less is known about the bilateral sharing of EPR steering yet. Here, we aim at investigating the EPR steering sharing between sequential pairs of observers. We show that an unbounded number of sequential Alice-Bob pairs can share the EPR steering as long as the initially shared state is an entangled two-qubit pure state. The claim is also true for particular class of mixed entangled states.
description: 11 pages, 1 figure
A novel high-throughput microwell outgrowth assay for HIV-infected cells
Creators: name: Moeser, Matthew
name: Margolis, David M.
name: Turner, Anne-Marie
name: Joseph, Sarah
name: Archin, Nancie
name: Fenton, Anthony D.
name: Browne, Edward P.
Publisher: name: American Society for Microbiology
Year: 2024

description: Although antiretroviral therapy (ART) is effective at suppressing HIV replication, a viral reservoir persists that can reseed infection if ART is interrupted. Curing HIV will require elimination or containment of this reservoir, but the size of the HIV reservoir is highly variable between individuals. To evaluate the size of the HIV reservoir, several assays have been developed, including PCR-based assays for viral DNA, the intact proviral DNA assay, and the quantitative viral outgrowth assay (QVOA). QVOA is the gold standard assay for measuring inducible replication-competent proviruses, but this assay is technically challenging and time-consuming. To begin progress toward a more rapid and less laborious tool for quantifying cells infected with replication-competent HIV, we developed the Microwell Outgrowth Assay, in which infected CD4 T cells are co-cultured with an HIV-detecting reporter cell line in a polydimethylsiloxane (PDMS)/polystyrene array of nanoliter-sized wells. Transmission of HIV from infected cells to the reporter cell line induces fluorescent reporter protein expression that is detected by automated scanning across the array. Using this approach, we were able to detect HIV-infected cells from ART-naïve people with HIV (PWH) and from PWH on ART with large reservoirs. Furthermore, we demonstrate that infected cells can be recovered from individual rafts and used to analyze the diversity of viral sequences. Although additional development and optimization will be required for quantifying the reservoir in PWH with small latent reservoirs, this assay may be a useful prototype for microwell assays of infected cells.IMPORTANCEMeasuring the size of the HIV reservoir in people with HIV (PWH) will be important for determining the impact of HIV cure strategies. However, measuring this reservoir is challenging. We report a new method for quantifying HIV-infected cells that involves culturing cells from PWH in an array of microwells with a cell line that detects HIV infection. We show that this approach can detect rare HIV-infected cells and derive detailed virus sequence information for each infected cell.
Strategies for Coping with Minority Stress among Queer Young Adults: Usage Frequency, Associations with Demographics, and Mental Health
Creators: name: Ramon, Magdelene E.
name: Williams, Denise Yookong
name: Englert, Adam R.
name: Srivastava, Ankur
name: Scott, McRae
name: Gao, Yutong
name: Hall, William J.
name: Chiang, Pin-Chen
name: Xu, Yinuo
Publisher: name: MDPI
Year: 2024

description: Queer young adults report significantly higher levels of anxiety and depression than their heterosexual counterparts, which is linked to sexual minority stress. Therefore, it is important to understand the coping strategies employed by this population to navigate minority stress and how coping strategies may impact mental health outcomes. Drawing from a U.S. national diverse sample of 387 queer young adults (ages 18–39 years), we analyzed descriptive results of 11 behavioral strategies to cope with minority stress and used ordered logistic and linear regression to examine the following objectives: the frequency of the use of each coping strategy, and the associations between each strategy and demographic characteristics as well as depression and anxiety. Results revealed that avoidance and talking with friends were the most frequently utilized coping strategies, while prayer/religious activities and counseling/psychotherapy/support groups were infrequently used. We examined utilization preferences of coping strategies across demographic factors (e.g., assigned sex at birth and sexual orientation). The use of counseling/psychotherapy/support group was positively associated with mental health symptoms, while exercise and mindfulness/mediation were associated with lower mental health symptoms. Our findings provide insights for mental health researchers and professionals in selecting appropriate coping strategies for queer young adults in prevention and intervention efforts.
Publishing data?! How do you do that then?
Creators: name: Callaghan, Sarah
Publisher: name: Zenodo
Year: 2013
Subjects: data and information

description: Data are a vital part of the scientific process, but all too often they languish at the bottom of cupboards or on servers, without any documentation, or any credit given to the researcher who created and/or manages them. Now, more than ever, data is of interest not only to researchers, but also to the funders and members of the general public, and there is greater pressure on institutions and researchers to make their data available for further reuse. Journals and data repositories are providing new platforms for researchers to make their data available, and also to ensure that the data authors and managers get the credit they deserve for creating, maintaining and sharing their data. This talk will discuss advances in data citation and publication and is suitable for anyone who works with data.
description: Previously curated at: http://cedadocs.ceda.ac.uk/949/ Event type: other. The publish date on this item was its original published date. This item was not refereed before the publication Main files in this record: LibraryTutorial_21May2013.pdf Item originally deposited with Centre for Environmental Data Analysis (CEDA) document repository by Dr Sarah Callaghan. Transferred to CEDA document repository community on Zenodo on 2022-11-24
Modularity and 4D-2D spectral equivalences for large-N gauge theories with adjoint matter
Creators: name: Başar, Gökçe
name: Cherman, Aleksey
name: Dienes, Keith R.
name: McGady, David A.
Publisher: name: arXiv
Year: 2015
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: In recent work, we demonstrated that the confined-phase spectrum of non-supersymmetric pure Yang-Mills theory coincides with the spectrum of the chiral sector of a two-dimensional conformal field theory in the large-$N$ limit. This was done within the tractable setting in which the gauge theory is compactified on a three-sphere whose radius is small compared to the strong length scale. In this paper, we generalize these observations by demonstrating that similar results continue to hold even when massless adjoint matter fields are introduced. These results hold for both thermal and $(-1)^F$-twisted partition functions, and collectively suggest that the spectra of large-$N$ confining gauge theories are organized by the symmetries of two-dimensional conformal field theories.
description: 51 pages, LaTeX, 3 figures
Nutritional quality of food purchases during the COVID-19 public health crisis: An analysis of geographic disparities in North Carolina
Creators: name: Ng, Shu Wen
name: Campos, Aline D’Angelo
Publisher: name: Elsevier
Year: 2024

description: Objective: To examine geographic disparities in the nutritional quality of food purchases during the COVID-19 public health crisis in North Carolina (NC).
Methods: Using shopper-level longitudinal transaction records between October 2019- and December 2020 from NC's largest grocery retailer, we fit mixed-effect models to examine disparities in the nutritional quality of food purchases among shoppers in counties with different levels of socioeconomic development and how such disparities changed after March 2020, accounting for other observed and contextual factors.
Results: Shoppers in counties with lower development levels purchased a larger share of calories from least healthy foods and a smaller share from healthier foods compared to shoppers in counties with higher development levels. These disparities were slightly attenuated for the least healthy foods and did not change for healthier foods after the onset of the COVID crisis.
Conclusion: Despite existing nutritional disparities among shoppers in counties with different levels of socioeconomic development, we did not observe a large-scale accentuation of inequities in dietary quality during the COVID-19 crisis. This pattern may have resulted from programmatic responses to mitigate the adverse effects of the COVID crisis on vulnerable populations. Future work should further explore the role of such responses.
Maprounea guianensis Aubl.
Creators: name: Jarvis, Charlie
Publisher: name: Zenodo
Year: 2007
Subjects: Biodiversity
Taxonomy
Plantae
Tracheophyta
Magnoliopsida
Malpighiales
Euphorbiaceae
Maprounea
Maprounea guianensis

description: Aegopricum betulinum Linnaeus filius, Supplementum Plantarum: 413. 1782. "Habitat in Surinamo. Dalberg." Lectotype (designated here by Esser): Dahlberg, Herb. Thunberg Cat. No. 21673 (UPS). Generitype of Aegopricum Linnaeus, Pl. Surinamensis: 15. 1775. Current name:  Maprounea guianensis Aubl. (Euphorbiaceae). Note: Believing there to be no extant original material, Radcliffe-Smith (in Jarvis & al., Regnum Veg. 127: 15. 1993) designated Hostmann 996 [“966”] ex Herb. Bentham (K) as a neotype. However, Esser has located Dahlberg material in UPS, which is original material for the name, and designates it as a lectotype in place of Radcliffe-Smith’s neotype.
description: Published as part of Jarvis, Charlie, 2007, Chapter 7: Linnaean Plant Names and their Types (part A), pp. 252-342 in Order out of Chaos. Linnaean Plant Types and their Types, London :Linnaean Society of London in association with the Natural History Museum on page 265, DOI: 10.5281/zenodo.291971
Connecting data repositories and publishers for data publication
Creators: name: Callaghan, Sarah
name: Murphy, Fiona
name: Tedds, Jonathan
name: Allan, Rob
name: Kunze, John
name: Lawrence, Rebecca
name: Mayernik, Matthew
name: Whyte, Angus
Publisher: name: Zenodo
Year: 2013
Subjects: data and information
data publication
data citation

description: This presentation discusses the requirements for connecting data repositories and journal publishers for data publication, in the context of work done by the BADC and the PREPARDE project http://proj.badc.rl.ac.uk/preparde/
description: Previously curated at: http://cedadocs.ceda.ac.uk/951/ Event type: workshop. The publish date on this item was its original published date. This item was previously associated with content (as an official url) at: https://www.openaire.eu/en/component/content/article/9-news-events/432-interoperability-workshop-uminho-78-february-2013. This item was not refereed before the publication Main files in this record: OAplus_InteroperabilityWorkshop_PREPARDE.pdf Item originally deposited with Centre for Environmental Data Analysis (CEDA) document repository by Dr Sarah Callaghan. Transferred to CEDA document repository community on Zenodo on 2022-11-24
Research Data Overview
Creators: name: Callaghan, Sarah
Publisher: name: Zenodo
Year: 2013
Subjects: data and information
data curation
data management

description: A step by step guide through the research data lifecycle, data set creation, big data vs long-tail, metadata, data centres/data repositories
description: Previously curated at: http://cedadocs.ceda.ac.uk/952/ Event type: workshop. The publish date on this item was its original published date. This item was not refereed before the publication Main files in this record: OAplus_Ghent_28May2013.pdf Item originally deposited with Centre for Environmental Data Analysis (CEDA) document repository by Dr Sarah Callaghan. Transferred to CEDA document repository community on Zenodo on 2022-11-24
Trichopria euvulgaris Huggert 1979
Creators: name: Notton, David G.
Publisher: name: Zenodo
Year: 2014
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hymenoptera
Mymaridae
Trichopria
Trichopria euvulgaris

description: Trichopria euvulgaris Huggert, 1979: 19, figs 22-27.
Valid name
Trichopria euvulgaris Huggert, 1979.
Summary of types
Holotype ♂, BMNH number 9.806, by original designation.
Primary type data
Mahe, ’08-9./ Seychelles Exp./ 95; type; Type/ H. T.; Seychelles Islands./ Percy Sladen Trust/ Expedition./ 1913-170.; Rhopalopria / vulgaris/ J.J.Kieffer/ Type; Holotypus / Trichopria ♂ / euvulgaris/ n. sp./ L.Huggert -77.
Type locality
Seychelles, Mahé.
Remarks
This species was described from a single male. The holotype is also a paralectotype of Rhopalopria vulgaris Kieffer, 1912 q.v. The holotype is mounted on a paper-covered cork block with the left hind wing missing and the left antenna and fore wing mounted on a microslide.
description: Published as part of Notton, David G., 2014, A catalogue of the types of Diapriinae (Hymenoptera, Diapriidae) at the Natural History Museum, London, pp. 1-123 in European Journal of Taxonomy 75 on page 46, DOI: 10.5852/ejt.2014.75, http://zenodo.org/record/3862773
HPFELD : Hosted Processing Facility for the Exploitation of Large Datasets
Creators: name: Marsh, Kevin
name: Kershaw, Philip
name: Latter, Barry
name: Smith, Garin
name: Boissier, Enguerran
Publisher: name: Zenodo
Year: 2013
Subjects: subject: data and information
subject: computer science
subject: https://id.loc.gov/authorities/subjects/sh2018002590.html
subject: https://id.loc.gov/authorities/subjects/sh85084334.html

description: The era of 'big data' means that data centres are under increasing pressure to hold and support datasets which are much larger than before. The sheer volume of such datasets means that it is becoming impractical for users to be expected to download and store them on their local systems. Even if they could do this, they are then faced with the problem of finding enough local computing resource to process the data in a timely fashion. This is particularly true for Earth Observation (EO)data from satellites. Consequently, these data are effectively unusable by a significant proportion of the user community. A more efficient approach would be to allow the data centre archive themselves to be coupled to processing capability, and made available to users over the internet. In this way, remote users could select a pre-configured algorithm (or upload their own) to run on the dataset. The actual processing would be run on a host system which was 'close' to the data archive, and the results of the processing, would be made available to view on-line or download to their local systems. In this system, other complementary datasets for the data centre could be easily incorporated into the processing, such as comparison with different 42 model datasets. The host system would also be able to leverage the power of 'cloud' technologies, with the HPFELD system itself providing the environment in which the processing is performed. The HPFELD project was an attempt to see if existing technologies (such as G-POD, OPeNDAP and OpenID) could be combined to rapidly produce a demonstration system It was part funded by the TSB, and was a collaboration between STFC (CEDA), and the commercial companies Magellium and Terradue. The demonstrator system was set up to process METOP IASI L1C and ECMWF data to derive methane, with the aim of making the processing as flexible and easy to use as possible. Both of these datasets are held in the BADC archive (http://badc.nerc.ac.uk). This system has been used to show the benefits of using this approach when processing very large datasets.
description: Previously curated at: http://cedadocs.ceda.ac.uk/954/ Event type: conference. The publish date on this item was its original published date. This item was not refereed before the publication Main files in this record: hpfeld_poster_2012.pdf Item originally deposited with Centre for Environmental Data Analysis (CEDA) document repository by Dr Kevin Marsh. Transferred to CEDA document repository community on Zenodo on 2022-11-24
Instrumentation and Analysis of Native ML Pipelines via Logical Query Plans
Creators: name: Grafberger, Stefan
Publisher: name: arXiv
Year: 2024
Subjects: subject: Databases (cs.DB)
subject: Machine Learning (cs.LG)
subject: Software Engineering (cs.SE)
subject: FOS: Computer and information sciences
subject: H.2; H.2.8; H.4; I.2

description: Machine Learning (ML) is increasingly used to automate impactful decisions, which leads to concerns regarding their correctness, reliability, and fairness. We envision highly-automated software platforms to assist data scientists with developing, validating, monitoring, and analysing their ML pipelines. In contrast to existing work, our key idea is to extract "logical query plans" from ML pipeline code relying on popular libraries. Based on these plans, we automatically infer pipeline semantics and instrument and rewrite the ML pipelines to enable diverse use cases without requiring data scientists to manually annotate or rewrite their code.
 First, we developed such an abstract ML pipeline representation together with machinery to extract it from Python code. Next, we used this representation to efficiently instrument static ML pipelines and apply provenance tracking, which enables lightweight screening for common data preparation issues. Finally, we built machinery to automatically rewrite ML pipelines to perform more advanced what-if analyses and proposed using multi-query optimisation for the resulting workloads. In future work, we aim to interactively assist data scientists as they work on their ML pipelines.
$X(3872)$ production and absorption in a hot hadron gas
Creators: name: Abreu, L. M.
name: Khemchandani, K. P.
name: Torres, A. Martinez
name: Navarra, F. S.
name: Nielsen, M.
Publisher: name: arXiv
Year: 2016
Subjects: subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: We calculate the time evolution of the $X(3872)$ abundance in the hot hadron gas produced in the late stage of heavy ion collisions. We use effective field Lagrangians to obtain the production and dissociation cross sections of $X(3872)$. In this evaluation we include diagrams involving the anomalous couplings $πD^*\bar{D}^*$ and $X \bar{D}^{\ast} D^{\ast}$ and also the couplings of the $X(3872)$ with charged $D$ and $D^*$ mesons. With these new terms the $X(3872)$ interaction cross sections are much larger than those found in previous works. Using these cross sections as input in rate equations, we conclude that during the expansion and cooling of the hadronic gas, the number of $X(3872)$, originally produced at the end of the mixed QGP/hadron gas phase, is reduced by a factor of 4.
description: 8 pages, 4 figures
MPEC 2023-Q25 : 2020 RZ5
Creators: name: Minor Planet Center Staff
Publisher: name: The Minor Planet Center
Year: 2023
Subjects: subject: Small Solar System bodies
valueUri: http://astrothesaurus.org/uat/1469

description: The Minor Planet Electronic Circulars contain information on unusual minor planets, routine data on comets and natural satellites, and occasional editorial announcements.  They are published on behalf of Division F of the International Astronomical Union by the Minor Planet Center, Smithsonian Astrophysical Observatory, Cambridge, MA 02138, U.S.A.
Rapid Colorimetric Detection of Pseudomonas aeruginosa in Clinical Isolates Using a Magnetic Nanoparticle Biosensor
Creators: name: Alhogail, Sahar
name: Suaifan, Ghadeer A.R.Y
name: Bikker, Floris J.
name: Kaman, Wendy E.
name: Weber, Karina
name: Cialla-May, Dana
name: Popp, Jürgen
name: Zourob, Mohammed M.
Publisher: name: Washington, DC : ACS Publications
Year: 2019
Subjects: subject: Biotechnology
subject: Color
subject: Colorimetry
subject: Peptides and proteins
subject: Sensors
subject: 540
subject: 660

description: A rapid, sensitive, and specific colorimetric biosensor based on the use of magnetic nanoparticles (MNPs) was designed for the detection of Pseudomonas aeruginosa in clinical samples. The biosensing platform was based on the measurement of P. aeruginosa proteolytic activity using a specific protease substrate. At the N-terminus, this substrate was covalently bound to MNPs and was linked to a gold sensor surface via cystine at the C-terminus of the substrates. The golden sensor appears black to naked eyes because of the coverage of the MNPs. However, upon proteolysis, the cleaved peptide–MNP moieties will be attracted by an external magnet, revealing the golden color of the sensor surface, which can be observed by the naked eye. In vitro, the biosensor was able to detect specifically and quantitatively the presence of P. aeruginosa with a detection limit of 102 cfu/mL in less than 1 min. The colorimetric biosensor was used to test its ability to detect in situ P. aeruginosa in clinical isolates from patients. This biochip is anticipated to be useful as a rapid point-of-care device for the diagnosis of P. aeruginosa-related infections.
Aeschynomene americana Linnaeus 1753
Creators: name: Jarvis, Charlie
Publisher: name: Zenodo
Year: 2007
Subjects: Biodiversity
Taxonomy
Plantae
Tracheophyta
Magnoliopsida
Fabales
Fabaceae
Aeschynomene
Aeschynomene americana

description: Aeschynomene americana Linnaeus, Species Plantarum 2: 713. 1753. "Habitat in Jamaica." RCN: 5489. Lectotype (Howard, Fl. Lesser Antilles 4: 443. 1988): [icon] " Hedysarum caule hirsuto, mimosae foliis alatis, pinnis acutis minimis gramineis" in Sloane, Voy. Jamaica 1: 186, t. 118, f. 3. 1707. - Typotype: Herb. Sloane 3: 90 (BM-SL). Current name:  Aeschynomene americana L. (Fabaceae: Faboideae). Note: Although some authors (e.g. Fawcett & Rendle, Fl. Jamaica 4: 27. 1920; Rudd in Contr. U. S. Natl. Herb. 32: 24. 1955) have treated Sloane material (BM) as the type, it was not seen by Linnaeus and is not original material for the name. Howard appears to have been the first to explicitly treat Sloane’s illustration as the type (which is, however, linked to Sloane’s specimen).
description: Published as part of Jarvis, Charlie, 2007, Chapter 7: Linnaean Plant Names and their Types (part A), pp. 252-342 in Order out of Chaos. Linnaean Plant Types and their Types, London :Linnaean Society of London in association with the Natural History Museum on pages 265-266, DOI: 10.5281/zenodo.291971
Trichopria nirva Huggert 1977
Creators: name: Notton, David G.
Publisher: name: Zenodo
Year: 2014
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hymenoptera
Mymaridae
Trichopria
Trichopria nirva

description: Trichopria nirva Huggert, 1977: 215, figs 38-43.
Valid name
Trichopria nirva Huggert, 1977.
Summary of types
Holotype ♀, BMNH number 9.803, by original designation.
Primary type data
145; Mahe, ’08-9./ Seychelles Exp.; Diapria / saxatilis/ J.J.Kieffer/ Paratype; Holotypus / Trichopria ♀ / nirva n. sp. / L.Huggert-76.
Type locality
Seychelles, Mahé.
Remarks
This species was described from a single female. The holotype is also a paralectotype of Diapria saxatilis q.v. The holotype is mounted on a card; the right antenna beyond the scape is missing and the left antenna and wings are mounted on a microslide on the same pin.
description: Published as part of Notton, David G., 2014, A catalogue of the types of Diapriinae (Hymenoptera, Diapriidae) at the Natural History Museum, London, pp. 1-123 in European Journal of Taxonomy 75 on pages 45-46, DOI: 10.5852/ejt.2014.75, http://zenodo.org/record/3862773