cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Membrane damage as mechanism of photodynamic inactivation using Methylene blue and TMPyP in Escherichia coli and Staphylococcus aureus
Creators: name: Muehler, Denise
name: Brandl, Elena
name: Hiller, Karl-Anton
name: Cieplik, Fabian
name: Maisch, Tim
Publisher: name: Universität Regensburg
Year: 2022
Subjects: subject: SINGLET OXYGEN; THERAPY; PHOTOINACTIVATION; PHOTOSENSITIZERS; PORPHYRIN; RESISTANCE; BACTERIA; CELLS; MRSA; Antibacterial; Photodynamic; Methylene blue; TMPyP; Membrane damage; Flow cytometry
subject: 570 Biowissenschaften, Biologie
subject: 610 Medizin

description: The worldwide threat of antibiotic resistance requires alternative strategies to fight bacterial infections. A promising approach to support conventional antibiotic therapy is the antimicrobial photodynamic inactivation (aPDI). The aim of this work was to show further insights into the antimicrobial photodynamic principle using two photosensitizers (PS) of different chemical classes, Methylene Blue (MB) and TMPyP, and the organisms Escherichia coli and Staphylococcus aureus as Gram-negative and Gram-positive representatives. Planktonic cultures of both species were cultured under aerobic conditions for 24 h followed by treatment with MB or TMPyP at various concentrations for an incubation period of 10 min and subsequent irradiation for 10 min. Ability to replicate was evaluated by CFU assay. Accumulation of PS was measured using a spectrophotometer. The cytoplasmic membrane integrity was investigated by flow cytometry using SYBR Green and propidium iodide. In experiments on the replication ability of bacteria after photodynamic treatment with TMPyP or MB, a killing rate of 5 log(10) steps of the bacteria was achieved. Concentration-dependent accumulation of both PS was shown by spectrophotometric measurements whereby a higher accumulation of TMPyP and less accumulation of MB was found for S. aureus as compared to E. coli. For the first time, a membrane-damaging effect of TMPyP and MB in both bacterial strains could be shown using flow cytometry analyses. Furthermore, we found that reduction of the replication ability occurs with lower concentrations than needed for membrane damage upon MB suggesting that membrane damage is not the only mechanism of aPDI using MB.
Lecithocerinae Le Marchand 1947
Creators: name: Das, Apurva
name: Pathania, Prakash C.
name: Singh, Navneet
Publisher: name: Zenodo
Year: 2022
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Lepidoptera
Lecithoceridae

description: Subfamily Lecithocerinae Le Marchand, 1947
Type genus: Lecithocera Herrich-Schäffer, 1853
description: Published as part of Das, Apurva, Pathania, Prakash C. & Singh, Navneet, 2022, A catalogue of Indian Lecithoceridae (Lepidoptera: Gelechioidea), pp. 56-78 in Zootaxa 5165 (1) on page 62, DOI: 10.11646/zootaxa.5165.1.2, http://zenodo.org/record/6825526
Orchestrating federated processing within a federation of cancer imaging and clinical data nodes – The EUCAIM perspective
Creators: name: Hernandez-Ferrer, Carles
name: Socayna Jouide
name: Codó, Laia
name: Chavero-Díez, Maria
name: Blanquer, Ignacio
name: Cremonesi, Francesco
name: Lorenzi, Marco
name: Lekadir Karim
name: Bonmati, Luis Marti
name: Capella-Gutierrez, Salvador
name: Gelpí, Josep Lluís
Publisher: name: F1000 Research Limited
Year: 2024

description: The EUropean Federation for CAncer IMages (EUCAIM) project aims to revolutionize healthcare across Europe by leveraging artificial intelligence (AI). Central to this endeavor is the introduction of federated processing, a decentralized mechanism to analyze data across different collections. Federated processing, including federated learning, enables collaborative data analysis across distributed data-sets while preserving data-privacy and security. In EUCAIM, federated processing addresses the challenge of amalgamating extensive healthcare cancer image and clinical data dispersed across European regions while complying with stringent data protection regulations. The project has started with an initial set of 23 clinical sites, including 19 hospitals, from 12 European countries. It aims to expand to at least 30 distributed data providers from 15 countries by 2026. During the project lifetime, it will also incorporate 5 major clinical imaging repositories associated to the AI4HI network. In this context, research infrastructures like ELIXIR, BBMRI-ERIC and EuroBioimaging will play a crucial role facilitating best practices for research data management and data and metadata interoperability. Both aspects are key for the long term sustainability of such endeavor.  Moreover, the project aims to facilitate the benchmark and deployment of AI algorithms and tools for clinical prediction within the infrastructure, with a target of promoting at least 50 new deployments. We will outline the adopted strategy for  federated processing in EUCAIM by describing the technical implementation of the infrastructure. Described components will include: analysis orchestrator, data materialization, data transference, and analytical framework. Through this infrastructure for federated processing, EUCAIM aims to contribute to establish a cohesive, privacy-preserving, and ethically sound AI ecosystem in European healthcare.
The sweet and musky scent of home: biogenic ethylene fine‐tunes seed germination in wetlands
Creators: name: Phartyal, S. S.
name: Rosbakh, Sergey
name: Gruber, M.
name: Poschlod, Peter
Publisher: name: Universität Regensburg
Year: 2022
Subjects: subject: PHRAGMITES-AUSTRALIS; TYPHA-LATIFOLIA; DORMANCY; REGENERATION; RESPONSES; ACID; TEMPERATURE; INHIBITION; DISPERSAL; ECOLOGY; Gas; germination niche; mud; reproduction; sediment; seed; trigger
subject: 580 Pflanzen (Botanik)
subject: 610 Medizin

description: Wetlands are known for comparatively high production of biogenic ethylene from decomposed sediment. Because the gas has various well-documented effects on seed physiology, we asked whether it can be a vital seed germination cue for wetland plants. Specifically, we explored whether ethylene plays an ecological role in (i) breaking/weakening seed dormancy, (ii) broadening the germination niche width, (iii) promoting germination speed or (iv) altering the germination requirements of six plant species with different occurrence along a hydroperiod gradient. In a factorial experiment, both ethylene-treated and untreated seeds were incubated in combinations of temperature (constant versus fluctuating), illumination (light versus darkness) and oxygen (aerobic versus hypoxia) with and without cold stratification. Our results revealed seed exposure to ethylene did not weaken or break dormancy without cold stratification treatment. However, ethylene helped to broaden the germination niche width, increased overall germination percentage and speed of cold-stratified (non-dormant) seeds. This indicates that ethylene helps those seeds that lost dormancy (non-dormant) to sense favourable water-saturated versus flooded substrate depending on their requirement for aerobic versus hypoxic conditions to trigger germination. We conclude that ethylene does not interfere directly with the dormancy-breaking process in autumn-dispersed seeds that are naturally cold-stratified in winter and germinate in spring/summer. However, ethylene plays a crucial ecological role as a 'flood detector' for different wetland plant communities (reed, mudflat, swamp, shallow water) to synchronize germination of non-dormant seeds in the most suitable habitat at the right time.
Sguardi sulle identità siciliane A proposito del libro Il mistero e l’inganno. Pensare, narrare e creare la Sicilia
Creators: name: Giordano, Giuseppe
Publisher: name: Humanities
Year: 2024

description: Il problema dell’identità siciliana si muove su più versanti. Giovanni Gentile, nel 1917, licenziando la seconda edizione di Il tramonto della cultura siciliana, sosteneva che il suo studio aveva «procurato di spiegare il perché di quella forma di cultura indigena, e tutta schiettamente siciliana, che pur dopo l’unificazione era fiorita in Sicilia, ma che s’era venuta spogliando del suo carattere regionale sulla fine del secolo
description: Humanities, V. 12, N. 2 (2024)
Additional file 7: Table S2. of Extracting phylogenetic signal and accounting for bias in whole-genome data sets supports the Ctenophora as sister to remaining Metazoa
Creators: name: Borowiec, Marek
name: Lee, Ernest
name: Chiu, Joanna
name: Plachetzki, David
Publisher: name: Figshare
Year: 2015
Subjects: subject: Biochemistry
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Evolutionary Biology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified

description: Summary of statistics from Bayesian searches of phylogeny using PhyloBayes. Maxdiff
Alciphanes Meyrick 1925
Creators: name: Das, Apurva
name: Pathania, Prakash C.
name: Singh, Navneet
Publisher: name: Zenodo
Year: 2022
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Lepidoptera
Lecithoceridae
Alciphanes

description: Genus Alciphanes Meyrick, 1925: 207
Type species: Tingentera molybdantha Meyrick, 1908, by original designation
description: Published as part of Das, Apurva, Pathania, Prakash C. & Singh, Navneet, 2022, A catalogue of Indian Lecithoceridae (Lepidoptera: Gelechioidea), pp. 56-78 in Zootaxa 5165 (1) on page 62, DOI: 10.11646/zootaxa.5165.1.2, http://zenodo.org/record/6825526
Odd Colorings of Sparse Graphs
Creators: name: Cranston, Daniel W.
Publisher: name: arXiv
Year: 2022
Subjects: subject: Combinatorics (math.CO)
subject: FOS: Mathematics
subject: 05C15

description: A proper coloring of a graph is called \emph{odd} if every non-isolated vertex has some color that appears an odd number of times on its neighborhood. The smallest number of colors that admits an odd coloring of a graph $G$ is denoted $χ_o(G)$. This notion was introduced by Petruševski and Škrekovski, who proved that if $G$ is planar then $χ_o(G)\le 9$; they also conjectured that $χ_o(G)\le 5$. For a positive real number $α$, we consider the maximum value of $χ_o(G)$ over all graphs $G$ with maximum average degree less than $α$; we denote this value by $χ_o(\mathcal{G}_α)$. We note that $χ_o(\mathcal{G}_α)$ is undefined for all $α\ge 4$. In contrast, for each $α\in[0,4)$, we give a (nearly sharp) upper bound on $χ_o(\mathcal{G}_α)$. Finally, we prove $χ_o(\mathcal{G}_{20/7})= 5$ and $χ_o(\mathcal{G}_3)= 6$. Both of these results are sharp.
description: 8 pages
Changes in healthcare seeking and lifestyle in old aged individuals during COVID-19 lockdown in Germany: the population-based AugUR study
Creators: name: Brandl, Caroline
name: Zimmermann, Martina E.
name: Günther, Felix
name: Dietl, Alexander
name: Küchenhoff, Helmut
name: Loss, Julika
name: Stark, Klaus J.
name: Heid, Iris M.
Publisher: name: Universität Regensburg
Year: 2022
Subjects: subject: UNITED-STATES; SARS-CoV-2; Coronavirus; COVID-19; AugUR; Population-based study; Old aged population; Lifestyle factors; Quality of life; Proportion at risk for COVID-19; Physical activity; smoking; alcohol consumption
subject: 610 Medizin

description: Background Containment measures in the COVID-19 pandemic protected individuals at high risk, particularly individuals at old age, but little is known about how these measures affected health-related behavior of old aged individuals. We aimed to investigate the impact of the spring 2020 lockdown in Germany on healthcare-seeking and health-related lifestyle in the old aged and to identify susceptible subgroups. Methods We conducted a follow-up survey among the pre-pandemically well-characterized participants of our AugUR cohort study, residents in/around Regensburg aged 70+ years and relatively mobile. A self-completion questionnaire on current behavior, perceived changes, and SARS-Cov-2 infection was mailed in May 2020, shortly before contact restrictions ended. Pre-pandemic lifestyle and medical conditions were derived from previous study center visits. Results Among 1850 survey participants (73-98 years; net-response 89%), 74% were at increased risk for severe COVID-19 according to medical conditions; four participants reported SARS-CoV-2 infection (0.2%). Participants reported changes in behavior: 29% refrained from medical appointments, 14% increased TV consumption, 26% reported less physical activity, but no systematic increase of smoking or alcohol consumption. When comparing during- and pre-lockdown reports of lifestyle within participant, we found the same pattern as for the reported perceived changes. Women and the more educated were more susceptible to changes. Worse QOL was perceived by 38%. Conclusions Our data suggest that the spring 2020 lockdown did not affect the lifestyle of a majority of the mobile old aged individuals, but the substantial proportions with decreased physical activity and healthcare-seeking are markers of collateral damage.
Additional file 2: Figure S2. of Syntaxin 4 regulates the surface localization of a promyogenic receptor Cdo thereby promoting myogenic differentiation
Creators: name: Yoo, Miran
name: Bok-Geon Kim
name: Lee, Sang-Jin
name: Hyeon-Ju Jeong
name: Park, Jong
name: Seo, Dong-Wan
name: Kim, Yong
name: Lee, Hoi
name: Jeung-Whan Han
name: Kang, Jong-Sun
name: Gyu-Un Bae
Publisher: name: Figshare
Year: 2015
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: Developmental Biology
subject: Plant Biology

description: Phosphorylation of AKT in Stx4-depleted or Stx4-overexpressed C2C12 cells. C2C12 cells were transfected with control, Stx4, or shStx4 expression vectors, and the lysates were analyzed for the levels of phospho-AKT (p-AKT) relative to total AKT.
Recensione a: Pluralismi. Riflessioni su corpi, politiche e rappresentazioni di genere
Creators: name: Smeriglio, Erika
Publisher: name: Humanities
Year: 2024

description: In Pluralismi. Riflessioni su corpi, politiche e rappresentazioni di genere, a cura di Domenica Bruni, Antonia Cava, Milena Meo e Assunta Penna, ed edito da Mimesis/Eterotopie, il pensiero si estende in un movimento concentrico ed inclusivo, attraversando trasversalmente temi sensibili del collettivo. Astrazioni, corpi, segni linguistici, accadimenti sociali, elementi psichici confluiscono tutti in una lingua o, per meglio dire, una non-lingua che esprime sintomaticamente l’assenza di una narrazione di legame, vissuti di frammentazione che necessitano di ricucirsi all’umano. L’umano qui inteso dalle autrici e dagli autori nella sua natura concava e insieme convessa, in grado cioè di compiere un esercizio doppio: congiungere e significare al suo interno ma anche collegare ciò che è proteso verso l’esterno, ciò che si declina al futuro.
description: Humanities, V. 12, N. 2 (2024)
Additional file 1: of Randomized controlled trials: who fails run-in?
Creators: name: Rees, Judy
name: Mott, Leila
name: Barry, Elizabeth
name: Baron, John
name: Figueiredo, Jane
name: Robertson, Douglas
name: Bresalier, Robert
name: Peacock, Janet
Publisher: name: Figshare
Year: 2016
Subjects: Medicine
Developmental Biology
Cancer
Science Policy

description: Institutional Review Boards that approved the trial at each study center. (DOCX 14 kb)
Sensing Method for Two-Target Detection in Time-Constrained Vector Poisson Channel
Creators: name: Fahad, Muhammad
name: Fuhrmann, Daniel R.
Publisher: name: arXiv
Year: 2022
Subjects: subject: Information Theory (cs.IT)
subject: Signal Processing (eess.SP)
subject: Computation (stat.CO)
subject: FOS: Computer and information sciences
subject: FOS: Electrical engineering, electronic engineering, information engineering

description: It is an experimental design problem in which there are two Poisson sources with two possible and known rates, and one counter. Through a switch, the counter can observe the sources individually or the counts can be combined so that the counter observes the sum of the two. The sensor scheduling problem is to determine an optimal proportion of the available time to be allocated toward individual and joint sensing, under a total time constraint. Two different metrics are used for optimization: mutual information between the sources and the observed counts, and probability of detection for the associated source detection problem. Our results, which are primarily computational, indicate similar but not identical results under the two cost functions.
description: 24 pages, 37 figures, journal article
Sensing Method for Two-Target Detection in Time-Constrained Vector Gaussian Channel
Creators: name: Fahad, Muhammad
name: Fuhrmann, Daniel R.
Publisher: name: arXiv
Year: 2022
Subjects: subject: Information Theory (cs.IT)
subject: Signal Processing (eess.SP)
subject: FOS: Computer and information sciences
subject: FOS: Electrical engineering, electronic engineering, information engineering

description: This paper considers a vector Gaussian channel of fixed identity covariance matrix and binary input signalling as the mean of it. A linear transformation is performed on the vector input signal. The objective is to find the optimal scaling matrix, under the total time constraint, that would: i) maximize the mutual information between the input and output random vectors, ii) maximize the MAP detection. It was found that the two metrics lead to different optimal solutions for our experimental design problem. We have used the Monte Carlo method for our computational work.
description: 14 pages, 28 figures, journal article. arXiv admin note: text overlap with arXiv:2201.07915
Multiple Surrogates in the Meta-Analytic Setting for Normally Distributed Endpoints
Creators: name: Van der Elst, Wim
name: Ong, Fenny
name: Stijven, Florian
name: Abad, Ariel Alonso
name: Van Keilegom, Ingrid
name: Geys, Helena
name: Eisele, Lewin
name: Molenberghs, Geert
Publisher: name: Taylor & Francis
Year: 2024
Subjects: subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Pharmacology
subject: Mathematical Sciences not elsewhere classified
subject: Cancer
subject: Science Policy

description: The identification of good surrogate endpoints is a challenging endeavor. This may, at least partially, be attributable to the fact that most researchers have focused on the identification of a single surrogate endpoint. It is thus implicitly assumed that the treatment effect on the true endpoint (T) can be accurately predicted based on the treatment effect on one surrogate endpoint (S) only. Given the complex nature of many diseases and the different therapeutic pathways in which a treatment can impact T, this assumption may be too optimistic. For example, in oncology, the effect of a treatment often depends on both the treatment’s efficacy and its toxicity. In the present article, the meta-analytic framework of? is extended to the setting where multiple S are considered. To cope with potential model convergence issues that often arise in a meta-analytic framework, several simplified model fitting strategies are proposed. Further, simulation studies are conducted to evaluate the properties of the estimated surrogacy metrics, and the new methodology is applied on a case study in schizophrenia. An online Appendix that details how the analyses can be conducted in practice (using the R package Surrogate) is also provided.
Alciphanes bathroptila Heteralcis
Creators: name: Das, Apurva
name: Pathania, Prakash C.
name: Singh, Navneet
Publisher: name: Zenodo
Year: 2022
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Lepidoptera
Lecithoceridae
Alciphanes
Alciphanes bathroptila

description: 1. Alciphanes bathroptila (Meyrick, 1929c: 517) (Heteralcis)
Type locality: India, Assam, Margherita
Distribution: Indian records: Assam.
description: Published as part of Das, Apurva, Pathania, Prakash C. & Singh, Navneet, 2022, A catalogue of Indian Lecithoceridae (Lepidoptera: Gelechioidea), pp. 56-78 in Zootaxa 5165 (1) on page 62, DOI: 10.11646/zootaxa.5165.1.2, http://zenodo.org/record/6825526
Additional file 2: Figure S1. of Extracting phylogenetic signal and accounting for bias in whole-genome data sets supports the Ctenophora as sister to remaining Metazoa
Creators: name: Borowiec, Marek
name: Lee, Ernest
name: Chiu, Joanna
name: Plachetzki, David
Publisher: name: Figshare
Year: 2015
Subjects: subject: Biochemistry
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Evolutionary Biology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Cancer

description: Maximum Likelihood tree of the Total1080 dataset. (PDF 6608Â kb)
Multiple surrogates in the meta-analytic setting for normally distributed endpoints
Creators: name: Van der Elst, Wim
name: Ong, Fenny
name: Stijven, Florian
name: Abad, Ariel Alonso
name: Van Keilegom, Ingrid
name: Geys, Helena
name: Eisele, Lewin
name: Molenberghs, Geert
Publisher: name: Taylor & Francis
Year: 2024
Subjects: subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Pharmacology
subject: Mathematical Sciences not elsewhere classified
subject: Cancer
subject: Science Policy

description: The identification of good surrogate endpoints is a challenging endeavour. This may, at least partially, be attributable to the fact that most researchers have focused on the identification of a single surrogate endpoint. It is thus implicitly assumed that the treatment effect on the true endpoint (T) can be accurately predicted based on the treatment effect on one surrogate endpoint (S) only. Given the complex nature of many diseases and the different therapeutic pathways in which a treatment can impact T, this assumption may be too optimistic. For example, in oncology, the effect of a treatment often depends on both the treatment’s efficacy and its toxicity. In the present paper, the meta-analytic framework of Buyse et al. (2000) is extended to the setting where multiple S are considered. To cope with potential model convergence issues that often arise in a meta-analytic framework, several simplified model fitting strategies are proposed. Further, simulation studies are conducted to evaluate the properties of the estimated surrogacy metrics, and the new methodology is applied on a case study in schizophrenia. An online Appendix that details how the analyses can be conducted in practice (using the R package Surrogate) is also provided.
Additional file 1: Figure S1. of Complexity of a small non-protein coding sequence in chromosomal region 22q11.2: presence of specialized DNA secondary structures and RNA exon/intron motifs
Creators: name: Delihas, Nicholas
Publisher: name: Figshare
Year: 2015
Subjects: subject: Biochemistry
subject: 29999 Physical Sciences not elsewhere classified
subject: FOS: Physical sciences
subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Evolutionary Biology
subject: Sociology
subject: FOS: Sociology
subject: Immunology
subject: FOS: Clinical medicine
subject: 111714 Mental Health
subject: FOS: Health sciences
subject: 110309 Infectious Diseases
subject: 60506 Virology
subject: Computational Biology

description: Alignment of sequences from Homo sapiens chromosome 22 (GRCh38 Primary Assembly, coordinates:18890337â  18900336) and Pan troglodytes chromosome 22, Pan_troglodytes-2.1.4, (coordinates: 17300774 to 17307562). Alignment was by Clustal W2. Breakpoint sequences are missing in the chimpanzee, although some small segments are present, e.g., the eighteen nucleotide sequence in the chimpanzee (positions 1367â  1384) that are identical to the human breakpoint sequence. (PDF 30 kb)
Additional file 6: Figure S5. of Extracting phylogenetic signal and accounting for bias in whole-genome data sets supports the Ctenophora as sister to remaining Metazoa
Creators: name: Borowiec, Marek
name: Lee, Ernest
name: Chiu, Joanna
name: Plachetzki, David
Publisher: name: Figshare
Year: 2015
Subjects: subject: Biochemistry
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Evolutionary Biology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Developmental Biology
subject: 60506 Virology

description: Progressive concatenation and binning analysis of the position of Strigamia. (PDF 2880Â kb)
Bogoyavlensky lattices and generalized Catalan numbers
Creators: name: Adler, V. E.
Publisher: name: arXiv
Year: 2022
Subjects: subject: Exactly Solvable and Integrable Systems (nlin.SI)
subject: Combinatorics (math.CO)
subject: FOS: Physical sciences
subject: FOS: Mathematics
subject: 37K10, 37K35, 37K60, 34M55, 33C20, 05A10

description: We study the problem of the decay of initial data in the form of a unit step for the Bogoyavlensky lattices. In contrast to the Gurevich--Pitaevskii problem of the decay of initial discontinuity for the KdV equation, it turns out to be exactly solvable, since the dynamics is linearizable due to termination on the half-line. The answer is written in terms of generalized hypergeometric functions, which serve as exponential generating functions for generalized Catalan numbers. This can be proved by the fact that the generalized Hankel determinants for these numbers are equal to 1, which is a well-known result in combinatorics. Another method is based on a non-autonomous symmetry reduction consistent with the dynamics. It reduces the lattice equation to a finite-dimensional system and makes it possible to solve the problem for a more general finite-parameter family of initial data.
description: 32 pages, 5 figures
A Note on Odd Colorings of 1-Planar Graphs
Creators: name: Cranston, Daniel W.
name: Lafferty, Michael
name: Song, Zi-Xia
Publisher: name: arXiv
Year: 2022
Subjects: subject: Combinatorics (math.CO)
subject: FOS: Mathematics

description: A proper coloring of a graph is odd if every non-isolated vertex has some color that appears an odd number of times on its neighborhood. This notion was recently introduced by Petruševski and Škrekovski, who proved that every planar graph admits an odd $9$-coloring; they also conjectured that every planar graph admits an odd $5$-coloring. Shortly after, this conjecture was confirmed for planar graphs of girth at least seven by Cranston; outerplanar graphs by Caro, Petruševski, and Škrekovski. Building on the work of Caro, Petruševski, and Škrekovski, Petr and Portier then further proved that every planar graph admits an odd $8$-coloring. In this note we prove that every 1-planar graph admits an odd $23$-coloring, where a graph is 1-planar if it can be drawn in the plane so that each edge is crossed by at most one other edge.
description: Third version improves upper bound from 31 to 23
A Unified Three-State Model Framework for Analysis of Treatment Crossover in Survival Trials
Creators: name: Zhao, Zile
name: Li, Ye
name: Luo, Xiaodong
name: Bai, Ray
Publisher: name: Taylor & Francis
Year: 2024
Subjects: Medicine
Pharmacology
Biotechnology
Mathematical Sciences not elsewhere classified

description: We present a unified three-state model (TSM) framework for evaluating treatment effects in clinical trials in the presence of treatment crossover. Researchers have proposed diverse methodologies to estimate the treatment effect that would have hypothetically been observed if treatment crossover had not occurred. However, there is little work on understanding the connections between these different approaches from a statistical point of view. The proposed TSM framework unifies existing methods, effectively identifying potential biases, model assumptions, and inherent limitations for each method. This can guide researchers in understanding when these methods are appropriate and choosing a suitable approach for their data. The TSM framework also facilitates the creation of new methods to adjust for confounding effects from treatment crossover. To illustrate this capability, we introduce a new imputation method that falls under its scope. Through simulation experiments, we demonstrate the performance of different approaches for estimating the treatment effects. Codes for implementing the methods within the TSM framework are available at https://github.com/JasonZhao111/TSM.
Alciphanes clavata Park 2001
Creators: name: Das, Apurva
name: Pathania, Prakash C.
name: Singh, Navneet
Publisher: name: Zenodo
Year: 2022
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Lepidoptera
Lecithoceridae
Alciphanes
Alciphanes clavata

description: 2. Alciphanes clavata Park in Park & Wu, 2001: 142
Type locality: Sri Lanka, Jaffana District, Chundikkulan Sanctuary
Distribution: Indian records: Jharkhand. Global records: Japan, Sri Lanka.
description: Published as part of Das, Apurva, Pathania, Prakash C. & Singh, Navneet, 2022, A catalogue of Indian Lecithoceridae (Lepidoptera: Gelechioidea), pp. 56-78 in Zootaxa 5165 (1) on page 62, DOI: 10.11646/zootaxa.5165.1.2, http://zenodo.org/record/6825526
Additional file 4: Figure S3. of Extracting phylogenetic signal and accounting for bias in whole-genome data sets supports the Ctenophora as sister to remaining Metazoa
Creators: name: Borowiec, Marek
name: Lee, Ernest
name: Chiu, Joanna
name: Plachetzki, David
Publisher: name: Figshare
Year: 2015
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Evolutionary Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Cancer

description: Bayesian CAT-GTR trees of each type of filtered and recoded dataset. (PDF 7912Â kb)
Social capital as a barrier to innovation: The mediating role of job autonomy
Creators: name: Wang, Zhan
name: McNally, Regina
name: Lenihan, Helena
name: Li, Changhong
Publisher: name: University of Limerick
Year: 2024
Subjects: classificationCode: 38
subject: Economics

description: While social capital has been extensively studied for its positive effects, its potential risks have received limited attention. This research addresses this gap by examining how social capital constrains job autonomy and subsequently hinders product innovation. Data were collected from 1,007 respondents at 102 Chinese high-tech small and medium-sized enterprises (SMEs), and analyzed using multilevel structural equation modeling. Our findings highlight that social capital negatively impacts product innovation by reducing job autonomy. From a managerial perspective, the findings identify the need for managers to carefully evaluate the trade-offs between the benefits and risks of fostering social capital in the workplace
Alciphanes rhizophora Timyra
Creators: name: Das, Apurva
name: Pathania, Prakash C.
name: Singh, Navneet
Publisher: name: Zenodo
Year: 2022
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Lepidoptera
Lecithoceridae
Alciphanes
Alciphanes rhizophora

description: 3. Alciphanes rhizophora (Meyrick, 1919b: 236) (Timyra)
Type locality: India, Tamil Nadu, Madras
Distribution: Indian records: Tamil Nadu. Global records: Sri Lanka.
description: Published as part of Das, Apurva, Pathania, Prakash C. & Singh, Navneet, 2022, A catalogue of Indian Lecithoceridae (Lepidoptera: Gelechioidea), pp. 56-78 in Zootaxa 5165 (1) on page 62, DOI: 10.11646/zootaxa.5165.1.2, http://zenodo.org/record/6825526
MOESM5 of Gene methylation of human ovarian carcinoma stromal progenitor cells promotes tumorigenesis
Creators: name: Chih-Ming Ho
name: Shih, Daniel
name: Chih-Chiang Hsiao
name: Shih-Hung Huang
name: Shwu-Fen Chang
name: Cheng, Wen-Fang
Publisher: name: Figshare
Year: 2015
Subjects: subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Physiology
subject: Pharmacology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Cancer
subject: Hematology

description: Additional file 5: Table S4. Frequency of methylation among stromal progenitor cells from ascites, cancerous tissues, and bulk tumor cells.
Heuristic Sensing Schemes for Four-Target Detection in Time-Constrained Vector Poisson and Gaussian Channels
Creators: name: Fahad, Muhammad
name: Fuhrmann, Daniel R.
Publisher: name: arXiv
Year: 2022
Subjects: subject: Information Theory (cs.IT)
subject: Signal Processing (eess.SP)
subject: Computation (stat.CO)
subject: FOS: Computer and information sciences
subject: FOS: Electrical engineering, electronic engineering, information engineering

description: In this work, we investigate the different sensing schemes for the detection of four targets as observed through a vector Poisson and Gaussian channels when the sensing time resource is limited and the source signals can be observed through a variety of sum combinations during that fixed time. For this purpose, we can maximize the mutual information or the detection probability with respect to the time allocated to different sum combinations, for a given total fixed time. It is observed that for both Poisson and Gaussian channels; mutual information and Bayes risk with $0-1$ cost are not necessarily consistent with each other. Concavity of mutual information between input and output, for certain sensing schemes, in Poisson channel and Gaussian channel is shown to be concave w.r.t given times as linear time constraint is imposed. No optimal sensing scheme for any of the two channels is investigated in this work.
description: 18 pages, 26 figures
Matrix extreme points and free extreme points of free spectrahedra
Creators: name: Epperly, Aidan
name: Evert, Eric
name: Helton, J. William
name: Klep, Igor
Publisher: name: Taylor & Francis
Year: 2024
Subjects: subject: Biophysics
subject: Biochemistry
subject: Physical Sciences not elsewhere classified
subject: Cell Biology
subject: Pharmacology
subject: Biotechnology
subject: Chemical Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Marine Biology
subject: Cancer
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Virology
subject: Computational Biology

description: Free spectrahedra are dimension free solution sets to linear matrix inequalities of the form
LA(X)=Id⊗In+A1⊗X1+A2⊗X2+⋯+Ag⊗Xg⪰0,where the Ai and Xi are symmetric matrices and the Xi have any size n×n. Free spectrahedra are ubiquitous in systems engineering, operator algebras, and the theory of matrix convex sets. Matrix and free extreme points of free spectrahedra are particularly important. We present theoretical, algorithmic, and experimental results illuminating basic properties of extreme points. For example, though many authors have studied matrix and free extreme points, it has until now been unknown if these two types of extreme points are actually different. This paper settles that issue. We also present and analyze several algorithms. Namely, we perfect an algorithm for computing an expansion of an element of a free spectrahedron in terms of free extreme points. We also give algorithms for testing if a point is matrix extreme and for computing matrix extreme points that are not free extreme.
Alciphanes tetraclina Timyra
Creators: name: Das, Apurva
name: Pathania, Prakash C.
name: Singh, Navneet
Publisher: name: Zenodo
Year: 2022
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Lepidoptera
Lecithoceridae
Alciphanes
Alciphanes tetraclina

description: 4. Alciphanes tetraclina (Meyrick, 1906: 143) (Timyra)
Type locality: Ceylon, Maskeliya [Now Sri Lanka]
Distribution: Indian records: Tamil Nadu. Global records: Sri Lanka.
description: Published as part of Das, Apurva, Pathania, Prakash C. & Singh, Navneet, 2022, A catalogue of Indian Lecithoceridae (Lepidoptera: Gelechioidea), pp. 56-78 in Zootaxa 5165 (1) on page 62, DOI: 10.11646/zootaxa.5165.1.2, http://zenodo.org/record/6825526
Measuring Patient-Reported Acceptability Outcomes via the Program Acceptability Tool for Telehealth (PATT)
Creators: name: Kelleher, Bridgette
Publisher: name: OSF Registries
Year: 2024
Subjects: subject: Medicine and Health Sciences
subject: Social and Behavioral Sciences

description: The present study outlines the initial development of a novel assessment tool – the Program Acceptability Tool for Telehealth (PATT) – that leverages an ecological, patient-centered framework to capture patients’ subjective experiences while enrolled in a multifaceted telehealth-based clinical trial, here focused on caregiver well-being. Whereas past studies have considered treatment acceptability as a singular construct, the PATT conceptualizes acceptability across treatment-related, process-related, and impact-related facets, which are all impacted by the participant’s own engagement in the trial. This manuscript will justify the theoretical basis for this approach and report initial scale development procedures, including preliminary psychometric interrogation of the measure’s structure and scoring in an initial cohort of caregivers enrolled in a clinical trial focused on caregiver well-being and quality of life.
Additional file 1: of Health professionalsâ   perceptions of the barriers and facilitators to providing smoking cessation advice to women in pregnancy and during the post-partum period: a systematic review of qualitative research
Creators: name: Flemming, Kate
name: Graham, Hilary
name: McCaughan, Dorothy
name: Angus, Kathryn
name: Sinclair, Lesley
name: Bauld, Linda
Publisher: name: Figshare
Year: 2016
Subjects: subject: Medicine
subject: Sociology
subject: FOS: Sociology

description: Contains the full search strategy used for the systematic review. (PDF 117Â kb)
Amaloxestis Gozmany 1971
Creators: name: Das, Apurva
name: Pathania, Prakash C.
name: Singh, Navneet
Publisher: name: Zenodo
Year: 2022
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Lepidoptera
Lecithoceridae
Amaloxestis

description: Genus Amaloxestis Gozmány, 1971: 251
Type species: Homaloxestis callitricha Meyrick, 1910b, by original designation
description: Published as part of Das, Apurva, Pathania, Prakash C. & Singh, Navneet, 2022, A catalogue of Indian Lecithoceridae (Lepidoptera: Gelechioidea), pp. 56-78 in Zootaxa 5165 (1) on page 62, DOI: 10.11646/zootaxa.5165.1.2, http://zenodo.org/record/6825526
Scattering for the Equivariant U(1) Problem
Creators: name: Gudapati, Nishanth
Publisher: name: arXiv
Year: 2022
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: Analysis of PDEs (math.AP)
subject: FOS: Physical sciences
subject: FOS: Mathematics
subject: 83C05, 35L51

description: Extending our previous works on the Cauchy problem for the $2+1$ equivariant Einstein-wave map system, we prove that the linear part dominates the nonlinear part of the wave maps equation coupled to the full set of the Einstein equations, for small data. A key ingredient in the proof is a nonlinear Morawetz estimate for the fully coupled equivariant Einstein-wave maps. The $2+1$ dimensional Einstein-wave map system occurs naturally in the U(1) symmetric $3+1$ dimensional vacuum Einstein equations of general relativity.
description: Published in Ann. Henri Poincar\'e (2024)
Additional file 5: of Which type of social activities may reduce cognitive decline in the elderly?: a longitudinal population-based study
Creators: name: Lee, Seung
name: Kim, Young
Publisher: name: Figshare
Year: 2016
Subjects: subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Developmental Biology

description: 4wave KLoSA Questionnaire English versioin_2012. (PDF 1433 kb)
Additional file 1. of Bioethanol from poplar clone Imola: an environmentally viable alternative to fossil fuel?
Creators: name: Guo, Miao
name: Changsheng Li
name: Facciotto, Gianni
name: Bergante, Sara
name: Bhatia, Rakesh
name: Comolli, Roberto
name: FerrĂŠ, Chiara
name: Murphy, Richard
Publisher: name: Figshare
Year: 2015
Subjects: subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: FOS: Biological sciences
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Science Policy

description: Supplementary life cycle inventory and impact assessment.
Los franciscanos en la provincia de San Antonio del Brasil: formación religiosa y educación entre los siglos XVIII y XIX
Creators: name: S. Oliveira, Carla Mary
Publisher: name: figshare
Year: 2024
Subjects: classificationCode: 430317
subject: Latin and South American history

description: Paper about religious formation among Franciscans in Colonial Brazilian Northeast Coast, 18th e 19th centuries.
NLTS Hamiltonians from good quantum codes
Creators: name: Anshu, Anurag
name: Breuckmann, Nikolas P.
name: Nirkhe, Chinmay
Publisher: name: arXiv
Year: 2022
Subjects: subject: Quantum Physics (quant-ph)
subject: Statistical Mechanics (cond-mat.stat-mech)
subject: Computational Complexity (cs.CC)
subject: FOS: Physical sciences
subject: FOS: Computer and information sciences

description: The NLTS (No Low-Energy Trivial State) conjecture of Freedman and Hastings [2014] posits that there exist families of Hamiltonians with all low energy states of non-trivial complexity (with complexity measured by the quantum circuit depth preparing the state). We prove this conjecture by showing that the recently discovered families of constant-rate and linear-distance QLDPC codes correspond to NLTS local Hamiltonians.
description: 12 pages, 1 figure, both updated versions update funding information and clarify discussions. No technical content changed between versions
Amaloxestis callitricha Homaloxestis
Creators: name: Das, Apurva
name: Pathania, Prakash C.
name: Singh, Navneet
Publisher: name: Zenodo
Year: 2022
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Lepidoptera
Lecithoceridae
Amaloxestis
Amaloxestis callitricha

description: 5. Amaloxestis callitricha (Meyrick, 1910b: 440) (Homaloxestis)
Type locality: India, Assam, Khasis [Now in Meghalaya]
Distribution: Indian records: Meghalaya.
description: Published as part of Das, Apurva, Pathania, Prakash C. & Singh, Navneet, 2022, A catalogue of Indian Lecithoceridae (Lepidoptera: Gelechioidea), pp. 56-78 in Zootaxa 5165 (1) on page 62, DOI: 10.11646/zootaxa.5165.1.2, http://zenodo.org/record/6825526
Additional file 3: of Which type of social activities may reduce cognitive decline in the elderly?: a longitudinal population-based study
Creators: name: Lee, Seung
name: Kim, Young
Publisher: name: Figshare
Year: 2016
Subjects: subject: Space Science
subject: Medicine
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences

description: 2wave KLoSA Questionnaire English version_2008. (PDF 1412 kb)
Additional file 2: of Trends in genetic diversity for all Kennel Club registered pedigree dog breeds
Creators: name: T. Lewis
name: B.M. Abhayaratne
name: S. Blott
Publisher: name: Figshare
Year: 2015
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Molecular Biology
subject: Pharmacology
subject: Evolutionary Biology
subject: Ecology
subject: Developmental Biology
subject: Science Policy
subject: Computational Biology

description: Whole period (1980–2014) rate of inbreeding per annum (dF, multiply by 100 for percentage), mean generation interval (L), effective population size (N e ) and mean registrations over the seven 5-year blocks (1980–1984, 1985–1989, 1990–1994, 1995–1999, 2000–2004, 2005–2009, 2010–2014) for the 94 breeds with an average of <50 registrations in at least one of those blocks. ‘n/a’ in columns dF, L and Ne indicates too few data to yield meaningful results. ‘n/a’ in the Ne column only indicates a negative rate of inbreeding over the whole period, meaning Ne is indeterminable. (DOCX 32 kb)
Additional file 1: Table S1. of Multicenter prospective study on the burden of rotavirus gastroenteritis in children less than 3 years of age in Spain
Creators: name: J. Arístegui
name: J. Ferrer
name: I. Salamanca
name: E. Garrote
name: A. Partidas
name: M. San-Martin
name: B. San-Jose
Publisher: name: Figshare
Year: 2016
Subjects: subject: Medicine
subject: Pharmacology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Developmental Biology
subject: Cancer
subject: Science Policy

description: Parent’s questionnaire. This file is the questionnaire administered to each child´s parent. (DOC 33 kb)
Less Training, More Repairing Please: Revisiting Automated Program Repair via Zero-shot Learning
Creators: name: Xia, Chunqiu Steven
name: Zhang, Lingming
Publisher: name: arXiv
Year: 2022
Subjects: subject: Software Engineering (cs.SE)
subject: FOS: Computer and information sciences

description: Due to the promising future of Automated Program Repair (APR), researchers have proposed various APR techniques, including heuristic-based, template-based, and constraint-based techniques. Among such classic APR techniques, template-based techniques have been widely recognized as state of the art. However, such template-based techniques require predefined templates to perform repair, and their effectiveness is thus limited. To this end, researchers leveraged the recent advances in Deep Learning to further improve APR. Such learning-based techniques view APR as a Neural Machine Translation problem, using the buggy/fixed code snippets as the source/target languages for translation. In this way, such techniques heavily rely on large numbers of high-quality bug-fixing commits, which can be extremely costly and challenging to construct. Furthermore, the edit variety of these learning-based techniques are limited to the available bug-fixes within their training datasets. Therefore, in this paper, we aim to revisit the learning-based APR problem, and propose AlphaRepair, to leverage zero-shot learning directly using large pre-trained code models for APR. Our main insight is instead of modeling what a repair edit should look like, we can directly predict what the correct code is based on the context information. We have implemented AlphaRepair as a practical multilingual APR tool based on the recent CodeBERT model. Our results on the widely used Defects4J benchmark show that AlphaRepair can substantially outperform state-of-the-art APR tools. We also studied the impact of different design choices and show that AlphaRepair performs even better on a newer version of Defects4J (2.0) with 3.3X more fixes than best performing baseline, indicating that AlphaRepair can potentially avoid the dataset-overfitting issue of existing learning-based techniques.
description: Accepted at ESEC/FSE 2022
Amaloxestis chiloptila Homaloxestis
Creators: name: Das, Apurva
name: Pathania, Prakash C.
name: Singh, Navneet
Publisher: name: Zenodo
Year: 2022
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Lepidoptera
Lecithoceridae
Amaloxestis
Amaloxestis chiloptila

description: 6. Amaloxestis chiloptila (Meyrick, 1921b: 435) (Homaloxestis)
Type locality: India, Assam, Shillong [Now in Meghalaya]
= Lecithocera chilopctila (misspell.) (Pathania et al. 2015: 10)
Distribution: Indian records: Meghalaya.
description: Published as part of Das, Apurva, Pathania, Prakash C. & Singh, Navneet, 2022, A catalogue of Indian Lecithoceridae (Lepidoptera: Gelechioidea), pp. 56-78 in Zootaxa 5165 (1) on page 62, DOI: 10.11646/zootaxa.5165.1.2, http://zenodo.org/record/6825526