cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
On Binding Energy of Trions in Bulk Materials
Creators: name: Filikhin, Igor
name: Kezerashvili, Roman Ya.
name: Vlahovic, Bronislav
Publisher: name: arXiv
Year: 2017
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: We study the negatively $T^{-}$ and positively $T^{+}$ charged trions in bulk materials in the effective mass approximation within the framework of a potential model. The binding energies of trions in various semiconductors are calculated by employing Faddeev equation in configuration space. Results of calculations of the binding energies for $T^{-}$ are consistent with previous computational studies and are in reasonable agreement with experimental measurements, while the $T^{+}$ is unbound for all considered cases. The mechanism of formation of the binding energy of trions is analysed by comparing contributions of a mass-polarization term related to kinetic energy operators and a term related to the Coulomb repulsion of identical particles.
description: 7 pages, 4 figures
Additional file 1 of Supplemental oxygen therapy use among patients with fibrosing interstitial lung disease in the United States
Creators: name: Yang, Joseph
name: Steffens, Andrea
name: Olson, Amy L.
name: Anderson, Amy
name: Basra, Gursimran
name: Veeranki, Phani
name: de Andrade, Joao A.
Publisher: name: figshare
Year: 2025
Subjects: subject: Medicine
subject: Biotechnology
subject: Environmental Sciences not elsewhere classified
subject: Biological Sciences not elsewhere classified
subject: Cancer
subject: Science Policy
subject: Hematology
subject: Infectious Diseases
subject: FOS: Health sciences

description: Supplementary Material 1
On recurrence equations associated with invariant varieties of periodic points
Creators: name: Saito, Satoru
name: Saitoh, Noriko
Publisher: name: arXiv
Year: 2006
Subjects: subject: Mathematical Physics (math-ph)
subject: FOS: Physical sciences
subject: 02.30.Ik, 05.45.-a, 45.05.+x

description: A recurrence equation is a discrete integrable equation whose solutions are all periodic and the period is fixed. We show that infinitely many recurrence equations can be derived from the information about invariant varieties of periodic points of higher dimensional integrable maps.
description: 14 pages
title: ADCO, Septième cartulaire de Saint-Étienne de Dijon (1661-1665), Cart. 29 (G 134), 996 folios, f. 0543
Creators: name: de la Côte d'Or, Archives départementales
name: Archives Départementales De La Côte-D'Or
name: Petot, Frédérique
name: Projet CBMA
name: CG21/F.PETOT/2012
name: Petot, Frédéric
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2020
Subjects: subject: Corpus Burgundiae Medii Aevi
subject: Chartes de la Bourgogne du Moyen Âge
subject: cartulaire
subject: LaMOP
subject: Laboratoire de Médiévistique Occidentale de Paris

description: Septième cartulaire de Saint-Étienne de Dijon (1661-1665), Archives départementales de la Côte-d'Or, Cart. 29 (G 134), 996 folios, f. 0543, Numérisation en mode image.
description: Relation: http://www.cbma-project.eu/
description: Bibliographic citation: Septième cartulaire de Saint-Étienne de Dijon (1661-1665), Archives départementales de la Côte-d'Or, Cart. 29 (G 134), 996 folios, f. 0543, in Projet CBMA - Corpus Burgundiae Medii Aevi [Ressource en ligne], https://manuscrits.cbma-project.eu/
description: Provenance: abbaye Saint-Étienne de Dijon
description: Provenance: http://www.wikidata.org/entity/Q15945019
Estimation of the infinitesimal generator by square-root approximation
Creators: name: Donati, Luca
name: Heida, Martin
name: Keller, Bettina G.
name: Weber, Marcus
Publisher: name: arXiv
Year: 2017
Subjects: subject: Computational Physics (physics.comp-ph)
subject: FOS: Physical sciences

description: For the analysis of molecular processes, the estimation of time-scales, i.e., transition rates, is very important. Estimating the transition rates between molecular conformations is -- from a mathematical point of view -- an invariant subspace projection problem. A certain infinitesimal generator acting on function space is projected to a low-dimensional rate matrix. This projection can be performed in two steps. First, the infinitesimal generator is discretized, then the invariant subspace is approxi-mated and used for the subspace projection. In our approach, the discretization will be based on a Voronoi tessellation of the conformational space. We will show that the discretized infinitesimal generator can simply be approximated by the geometric average of the Boltzmann weights of the Voronoi cells. Thus, there is a direct correla-tion between the potential energy surface of molecular structures and the transition rates of conformational changes. We present results for a 2d-diffusion process and Alanine dipeptide.
Additional file 11: of The neuropeptide genes SST, TAC1, HCRT, NPY, and GAL are powerful epigenetic biomarkers in head and neck cancer: a site-specific analysis
Creators: name: Misawa, Kiyoshi
name: Mima, Masato
name: Imai, Atsushi
name: Mochizuki, Daiki
name: Misawa, Yuki
name: Endo, Shiori
name: Ishikawa, Ryuji
name: Takeharu Kanazawa
name: Mineta, Hiroyuki
Publisher: name: figshare
Year: 2018
Subjects: subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Developmental Biology

description: Table S3. Distribution of methylation status by recurrence events in TCGA cohort. (DOCX 17Â kb)
Raw images of western blots from Inhibiting MEK1 R189 citrullination enhances the chemosensitivity of docetaxel to multiple tumour cells
Creators: name: Xue, Teng
name: Fei, Shujia
name: Gu, Jian
name: Li, Nan
name: Zhang, Pengxue
name: Liu, Xiaoqiu
name: Thompson, Paul R
name: Zhang, Xuesen
Publisher: name: The Royal Society
Year: 2023

description: Drug resistance is still a big challenge for cancer patients. We previously demonstrated that inhibiting peptidylarginine deiminase 2 (PADI2) enzyme activity with Cl-amine increases the efficacy of docetaxel (Doc) on Tamoxifen-resistance breast cancer cells with PADI2 expression. However, it is not clear whether this effect applies to other tumour cells. Here, we collected four types of tumour cells with different PADIs expression and fully evaluated the inhibitory effect of the combination of PADIs inhibitor (BB-Cla) and Doc in vitro and in vivo on tumour cell growth. Results show that inhibiting PADIs combined with Doc additively inhibits tumour cell growth across the four tumour cells. PADI2-catalysed citrullination of MEK1 Arg 189 exists in the four tumour cells, and blocking the function of MEK1 Cit189 promotes the anti-tumour effect of Doc in these tumour cells. Further analysis shows that inhibiting MEK1 Cit189 decreases the expression of cancer cell stemness factors and helps prevent cancer cell stemness maintenance. Importantly, this combined treatment can partially restore the sensitivity of chemotherapy-resistant cells to docetaxel or cisplatin in tumour cells. Thus, our study provides an experimental basis for the combined therapeutic approaches using docetaxel- and PADIs inhibitors-based strategies in tumour treatment.This article is part of the Theo Murphy meeting issue ‘The virtues and vices of protein citrullination’.
Highly Sensitive MoS2 Photodetectors with Graphene Contacts
Creators: name: Han, Peize
name: Marie, Luke St.
name: Wang, Qing X.
name: Quirk, Nicholas
name: Fatimy, Abdel El
name: Ishigami, Masahiro
name: Barbara, Paola
Publisher: name: arXiv
Year: 2017
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: Two-dimensional materials such as graphene and transition metal dichalcogenides (TMDs) are ideal candidates to create ultra-thin electronics suitable for flexible substrates. Although optoelectronic devices based on TMDs have demonstrated remarkable performance, scalability is still a significant issue. Most devices are created using techniques that are not suitable for mass production, such as mechanical exfoliation of monolayer flakes and patterning by electron-beam lithography. Here we show that large-area MoS2 grown by chemical vapor deposition and patterned by photolithography yields highly sensitive photodetectors, with record shot-noise-limited detectivities of 8.7 X 10^14 Jones in ambient condition and even higher when sealed with a protective layer. These detectivity values are higher than the highest values reported for photodetectors based on exfoliated MoS2. We study MoS2 devices with gold electrodes and graphene electrodes. The devices with graphene electrodes have a tunable band alignment and are especially attractive for scalable ultra-thin flexible optoelectronics.
Applying OSiRIS NMAL to Network Slices on SLATE
Creators: name: Musser, Jeremy
name: Kee, Shawn Mc
name: Kissel, Ezra
name: JOSEPH BREEN
name: Swany, Martin
name: Benjeman Jay Meekhof
name: Skipper, Grant
Publisher: name: Zenodo
Year: 2019

description: We will present techniques developed in collaboration with the OSiRIS project (NSF Award #1541335, UM, IU, MSU and WSU) and SLATE (NSF Award #1724821) for orchestrating software defined network slices with a goal of building reproducible and reliable computer networks for large data collaborations. With this project we have explored methods of utilizing passive and active measurements to build a carefully curated model of the network. We will show that by then using such a model, we can dynamically and programmatically alter network and host configuration to effectively respond to changing network conditions. As part of our presentation, we will show how SLATE, operating over a slice of the Internet2 network, provides a container focused platform for running a Network Management Abstraction Layer (NMAL), allowing us to control applications in a reliable and reproducible way. This presentation will demonstrate how NMAL tracks live network topological and performance statistics on an Internet2 slice with SLATE-enabled hosts to enact traffic engineering and container placement decisions in order to optimize network behavior based on user defined profiles. We will conclude by discussing the future of this work and our plans for using it to support science activities in production.
title: 01_2403
Creators: name: Wesley Baldwin, John
name: Baldwin, John W.
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2018
Subjects: subject: LaMOP
subject: Laboratoire de Médiévistique Occidentale de Paris

description: L'ensemble de ces notes ont été crée par John Baldwin lors d'une de ses premières périodes de résidence à Paris. Ces documents comprennent tous les magistri qu’il avait pu rencontrer dans ses sources. Aux XIIème et XIIIème siècles, les universités n'existant pas encore, le titre de magister s'il évoque certainement une compétence n'est pas rattaché de façon systématique au passage par les écoles. De surcroît, les magistris sont le plus souvent désignés par leur seul prénom. La lecture de ces données est donc difficile et suppose un long travail pour tenter d'identifier un individu auquel on pourrait rattacher plusieurs mentions. John Baldwin avait donc renoncé à utiliser ces données pour donner un prolongement à sa magnifique étude sur les gradués d'université et leur emploi par les Capétiens et les Plantagenêts. Néanmoins, il a conservé ces données et elles sont potentiellement très utile dans le cadre de Studium, comme le sont toutes les mentions dans les volumes des Fasti Ecclesiae Gallicanae de chanoines portant ce titre de magister sans autres précisions. L'ampleur des dépouillements rend ces données très utiles et nous devons une grande reconnaissance à John Baldwin pour avoir pris la peine de faire photocopier ses fiches et de nous les avoir transmises amicalement.
Les données ainsi que les images des fiches sont accessibles sur le site Internet à l'adresse suivante : http://studium-baldwin.lamop.fr/.
Les transcriptions des fiches ont été effectuées par des étudiants de Paris 1 Panthéon - Sorbonne mais elles n'ont pas été corrigées par la suite.
description: Relation: https://lamop.hypotheses.org/
Building Brain Tumor Segmentation Networks with User-Assisted Filter Estimation and Selection
Creators: name: Cerqueira, Matheus A.
name: Sprenger, Flávia
name: Teixeira, Bernardo C. A.
name: Falcão, Alexandre X.
Publisher: name: arXiv
Year: 2024
Subjects: subject: Computer Vision and Pattern Recognition (cs.CV)
subject: Artificial Intelligence (cs.AI)
subject: FOS: Computer and information sciences
subject: 68T07, 68T45

description: Brain tumor image segmentation is a challenging research topic in which deep-learning models have presented the best results. However, the traditional way of training those models from many pre-annotated images leaves several unanswered questions. Hence methodologies, such as Feature Learning from Image Markers (FLIM), have involved an expert in the learning loop to reduce human effort in data annotation and build models sufficiently deep for a given problem. FLIM has been successfully used to create encoders, estimating the filters of all convolutional layers from patches centered at marker voxels. In this work, we present Multi-Step (MS) FLIM - a user-assisted approach to estimating and selecting the most relevant filters from multiple FLIM executions. MS-FLIM is used only for the first convolutional layer, and the results already indicate improvement over FLIM. For evaluation, we build a simple U-shaped encoder-decoder network, named sU-Net, for glioblastoma segmentation using T1Gd and FLAIR MRI scans, varying the encoder's training method, using FLIM, MS-FLIM, and backpropagation algorithm. Also, we compared these sU-Nets with two State-Of-The-Art (SOTA) deep-learning models using two datasets. The results show that the sU-Net based on MS-FLIM outperforms the other training methods and achieves effectiveness within the standard deviations of the SOTA models.
description: 10 pages, 5 figures, 2 tables, 24 references, manuscript of conference paper
Orbital elements, masses and distance of lambda Scorpii A and B determined with the Sydney University Stellar Interferometer and high resolution spectroscopy
Creators: name: Tango, W. J.
name: Davis, J.
name: Ireland, M. J.
name: Aerts, C.
name: Uytterhoeven, K.
name: Jacob, A. P.
name: Mendez, A.
name: North, J. R.
name: Seneta, E. B.
name: Tuthill, P. G.
Publisher: name: arXiv
Year: 2006
Subjects: subject: Astrophysics (astro-ph)
subject: FOS: Physical sciences

description: The triple system HD158926 (lambda Sco) has been observed interferometrically with the Sydney University Stellar Interferometer and the elements of the wide orbit have been determined. These are significantly more accurate than the previous elements found spectroscopically. The inclination of the wide orbit is consistent with the inclination previously found for the orbit of the close companion. The wide orbit also has low eccentricity, suggesting that the three stars were formed at the same time. The brightness ratio between the two B stars was also measured at lambda = 442nm and 700nm. The brightness ratio and colour index are consistent with the previous classification of lambda Sco A as B1.5 and lambda Sco B as B2. Evolutionary models show that the two stars lie on the main sequence. Since they have have the same age and luminosity class (IV) the mass-luminosity relation can be used to determine the mass ratio of the two stars: M_B/M_A = 0.76+/-0.04. The spectroscopic data have been reanalyzed using the interferometric values for P, T, e and omega, leading to revised values for a_1sin i and the mass function. The individual masses can be found from the mass ratio, the mass function, spectrum synthesis and the requirement that the age of both components must be the same: M_A = 10.4+/-1.3 Msun and M_B = 8.1+/-1.0 Msun. The masses, angular semimajor axis and the period of the system can be used to determine the dynamical parallax. We find the distance to lambda Sco to be 112+/-5 pc, which is approximately a factor of two closer than the HIPPARCOS value of 216+/-42 pc.
description: 8 pages, 4 figures. Accepted for publication by Monthly Notices of the Royal Astronomical Society
Demonstrating that the non orthogonal orbital optimized coupled cluster model converges to full configuration interaction
Creators: name: Myhre, Rolf H.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Chemical Physics (physics.chem-ph)
subject: FOS: Physical sciences

description: Coupled cluster (CC) methods are among the most accurate methods in quantum chemistry. However, the standard CC linear response formulation is not gauge invariant resulting in errors when modelling properties like optical rotation and electron circular dichroism. Including an explicit unitary orbital rotation in the CC Lagrangian makes the linear response function gauge invariant, but the resulting models are not equivalent to full configuration interaction (FCI) in the untruncated limit. In this contribution, such methods are briefly discussed and it is demonstrated that methods using a nonorthogonal orbital transformation, such as nonorthogonal orbital optimized CC (NOCC), can converge to FCI in the untruncated limit. This has been disputed in the literature.
description: 18 pages
title: Understanding is continuance
title: an IS commitment perspective
titleType: Subtitle
Creators: name: Wang, Ye
Publisher: name: Washington State University
Year: 2008
Subjects: Management information systems -- Psychological aspects

description: The adoption of information systems (IS) by individuals has been a focus of IS research for years. Although initial adoption has been extensively studied by many researchers, less is known concerning users psychological relationship with adopted information systems, especially when alternative systems are available. Along with the growing interest in understanding effective use of IS beyond adoption, continued use of IS attracted increasing attention in the IS field indicating a need for in depth understanding of user s loyalty to adopted systems. To date, researchers have reported few attempts to identify an effective while parsimonious model of user loyalty and switching determinants. This research is carried out with a goal to fill this research gap by providing a theoretical framework along with empirical evidence that may contribute to both academic research and management practice. This dissertation incorporates commitment theories, which originated in social psychology, to the study of IS continuance and system switching intention. Integrating existing models of IS continuance, this dissertation proposes an IS commitment model that can help explain why some information systems enjoy sustained use while others diminish soon after initial adoption. Specifically, this dissertation suggests that IS continuance may be best understood by investigating user commitment towards specific information systems. Three dimensions of IS commitment, i.e., affective commitment, calculative commitment, and normative commitment are identified to formulate a research model. The antecedents to each dimension of IS commitment are investigated and included in the research model. Two longitudinal studies were conducted to empirically test the research model in the context of Web-mail services and group collaboration platforms. The comparisons of this research model with other prevalent IS adoption and continuance models, such as Technology Acceptance Model (TAM) (Davis 1989) and Expectation-Confirmation Model (ECM) (Bhattacherjee 2001) suggest improved variance explained by the proposed model. The implications, limitations, and future research directions are also addressed in this dissertation.
Additional file 7: of A narrative synthesis of research evidence for tinnitus-related complaints as reported by patients and their significant others
Creators: name: Hall, Deborah
name: Fackrell, Kathryn
name: Li, Anne
name: Thavayogan, Rachel
name: Smith, Sandra
name: Kennedy, Veronica
name: Tinoco, Catarina
name: Rodrigues, Evelina
name: Campelo, Paula
name: TĂ˘Nia Martins
name: LourenĂ§O, Vera
name: Ribeiro, Diogo
name: HaĂşla Haider
Publisher: name: figshare
Year: 2018
Subjects: subject: Medicine
subject: Biotechnology
subject: Sociology
subject: FOS: Sociology
subject: Developmental Biology
subject: Science Policy

description: Grouping table reporting the different terminology used by authors to describe the same theoretical constructs describing complaints reported by significant others who are members of the family of a person with tinnitus. Each grouping considered the examples and/or explanations given by the study authors for each problem domain (examples reported in the text). All data come from just two studies [23, 31]. (DOCX 14 kb)
Measurements of the pp$\to$ZZ production cross section and the Z$\to 4\ell$ branching fraction, and constraints on anomalous triple gauge couplings at $\sqrt{s} =$ 13 TeV
Creators: name: CMS Collaboration
Publisher: name: arXiv
Year: 2017
Subjects: subject: High Energy Physics - Experiment (hep-ex)
subject: FOS: Physical sciences

description: Four-lepton production in proton-proton collisions, $\mathrm{pp}\to (\mathrm{Z}/ γ^*)(\mathrm{Z}/γ^*) \to 4\ell$, where $\ell = \mathrm{e}$ or $μ$, is studied at a center-of-mass energy of 13 TeV with the CMS detector at the LHC. The data sample corresponds to an integrated luminosity of 35.9 fb$^{-1}$. The ZZ production cross section, $σ(\mathrm{pp} \to \mathrm{Z}\mathrm{Z}) = 17.2 \pm 0.5\text{ (stat) }\pm 0.7\text{ (syst) }\pm 0.4(\mathrm{theo}) \pm 0.4\text{ (lumi)}$ pb, measured using events with two opposite-sign, same-flavor lepton pairs produced in the mass region $60 < m_{\ell^+\ell^-} < $120 GeV, is consistent with standard model predictions. Differential cross sections are measured and are well described by the theoretical predictions. The Z boson branching fraction to four leptons is measured to be $\mathcal{B}(\mathrm{Z}\to 4\ell) = 4.8 \pm 0.2\text{ (stat) }\pm 0.2\text{ (syst) } \pm 0.1\text{ (theo) }\pm 0.1\text{ (lumi) }\times 10^{-6}$ for events with a four-lepton invariant mass in the range 80 $ < m_{4\ell} < $ 100 GeV and a dilepton mass $m_{\ell\ell} > $4 GeV for all opposite-sign, same-flavor lepton pairs. The results agree with standard model predictions. The invariant mass distribution of the four-lepton system is used to set limits on anomalous ZZZ and ZZ$γ$ couplings at 95% confidence level: $-0.0012 < f_4^\mathrm{Z} < 0.0010$, $-0.0010 < f_5^\mathrm{Z} < 0.0013$, $-0.0012 < f_4^γ < 0.0013$, $-0.0012 < f_5^γ < 0.0013$.
description: Replaced with the published version. Added the journal reference and the DOI. All the figures and tables can be found at http://cms-results.web.cern.ch/cms-results/public-results/publications/SMP-16-017/ (CMS Public Pages)
Fermi surface with Dirac fermions in CaFeAsF determined via quantum oscillation measurements
Creators: name: Terashima, Taichi
name: Hirose, Hishiro T.
name: Graf, David
name: Ma, Yonghui
name: Mu, Gang
name: Hu, Tao
name: Suzuki, Katsuhiro
name: Uji, Shinya
name: Ikeda, Hiroaki
Publisher: name: arXiv
Year: 2017
Subjects: subject: Superconductivity (cond-mat.supr-con)
subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: Despite the fact that 1111-type iron arsenides hold the record transition temperature of iron-based superconductors, their electronic structures have not been studied much because of the lack of high-quality single crystals. In this study, we completely determine the Fermi surface in the antiferromagnetic state of CaFeAsF, a 1111 iron-arsenide parent compound, by performing quantum oscillation measurements and band-structure calculations. The determined Fermi surface consists of a symmetry-related pair of Dirac electron cylinders and a normal hole cylinder. From analyses of quantum-oscillation phases, we demonstrate that the electron cylinders carry a nontrivial Berry phase $π$. The carrier density is of the order of 10$^{-3}$ per Fe. This unusual metallic state with the extremely small carrier density is a consequence of the previously discussed topological feature of the band structure which prevents the antiferromagnetic gap from being a full gap. We also report a nearly linear-in-$B$ magnetoresistance and an anomalous resistivity increase above about 30 T for $B \parallel c$, the latter of which is likely related to the quantum limit of the electron orbit. Intriguingly, the electrical resistivity exhibits a nonmetallic temperature dependence in the paramagnetic tetragonal phase ($T >$ 118 K), which may suggest an incoherent state. Our study provides a detailed knowledge of the Fermi surface in the antiferromagnetic state of 1111 parent compounds and moreover opens up a new possibility to explore Dirac-fermion physics in those compounds.
description: 11 pages, 7 figures, 1 table
Additional file 2: of Functional domains of SP110 that modulate its transcriptional regulatory function and cellular translocation
Creators: name: Jia-Shiun Leu
name: So-Yi Chang
name: Mu, Chia-Yu
name: Chen, Mei-Ling
name: Bo-Shiun Yan
Publisher: name: figshare
Year: 2018
Subjects: subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Molecular Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: Developmental Biology
subject: Hematology
subject: Plant Biology
subject: 60506 Virology

description: Figure S1. Subcellular localization of FLAG-tagged wild-type SP110 or SP110 mutant proteins. (a) Schematic representation of FLAG-tagged proteins containing SP110 deletion mutants. SP100: SP100 domain; SAND: SAND domain; PHD: PHD finger; Bromo: Bromodomain. (b-c) HEK293T cells were transfected with the indicated constructs, and the cellular distribution of FLAG-tagged SP110 proteins (wild-type (b) and mutated forms (c)) was visualized using confocal microscopy at 2 days post-transfection (upper panels). The cells were also subjected to Hoechst staining to identify nuclei (lower panels). Scale bars: 10 μm. The data represent 3 independent experiments. (PDF 738 kb)
Supplemetntal figures from Inhibiting MEK1 R189 citrullination enhances the chemosensitivity of docetaxel to multiple tumour cells
Creators: name: Xue, Teng
name: Fei, Shujia
name: Gu, Jian
name: Li, Nan
name: Zhang, Pengxue
name: Liu, Xiaoqiu
name: Thompson, Paul R
name: Zhang, Xuesen
Publisher: name: The Royal Society
Year: 2023

description: Drug resistance is still a big challenge for cancer patients. We previously demonstrated that inhibiting peptidylarginine deiminase 2 (PADI2) enzyme activity with Cl-amine increases the efficacy of docetaxel (Doc) on Tamoxifen-resistance breast cancer cells with PADI2 expression. However, it is not clear whether this effect applies to other tumour cells. Here, we collected four types of tumour cells with different PADIs expression and fully evaluated the inhibitory effect of the combination of PADIs inhibitor (BB-Cla) and Doc in vitro and in vivo on tumour cell growth. Results show that inhibiting PADIs combined with Doc additively inhibits tumour cell growth across the four tumour cells. PADI2-catalysed citrullination of MEK1 Arg 189 exists in the four tumour cells, and blocking the function of MEK1 Cit189 promotes the anti-tumour effect of Doc in these tumour cells. Further analysis shows that inhibiting MEK1 Cit189 decreases the expression of cancer cell stemness factors and helps prevent cancer cell stemness maintenance. Importantly, this combined treatment can partially restore the sensitivity of chemotherapy-resistant cells to docetaxel or cisplatin in tumour cells. Thus, our study provides an experimental basis for the combined therapeutic approaches using docetaxel- and PADIs inhibitors-based strategies in tumour treatment.This article is part of the Theo Murphy meeting issue ‘The virtues and vices of protein citrullination’.
Impact of the Integrative Oncology Scholars Program on Oncology Providers’ Key Knowledge of Dietary Supplements and Antioxidants for Providing Evidence-based Oncology Care
Creators: name: Benn, Rita
name: Fouladbakhsh, Judith M.
name: Zick, Suzanna M.
name: Walker, Eleanor M.
name: Zebrack, Bradley
name: Mayhew, Sabrina
name: Kadro, Zachary O.
name: Greenlee, Heather
name: Klein, Kristin C.
name: Henry, N. Lynn
name: Spratke, Lisa
name: Harris, Richard E.
name: Snyder, Sara
Publisher: name: Springer Nature
Year: 2023

description:
Dietary supplements are commonly used among cancer survivors. Oncology providers rarely receive training about dietary supplements. We evaluated whether e-learning modules could improve oncology providers’ dietary supplement knowledge. Oncology providers participated in the National Cancer Institute funded Integrative Oncology Scholars (IOS) program. We used posttest readiness assurance tests (RAT) to measure knowledge acquisition from modules. One cohort completed a pre and posttest RAT to assess change in knowledge. Multivariate linear regression models adjusted for gender, race, profession, and years in practice were used to determine if these characteristics were associated with posttest RAT performance and change in pre to posttest RAT scores. Scholars (N = 101) included 86% (N = 87) females; age 44 ± 10 years; 72% (N = 73) Non-Hispanic White; years in practice mean range 11–15 ± 10. There were 37 physicians, 11 physician assistants, 23 nurses, 21 social workers, 2 psychologists, 4 pharmacists, and 2 physical therapists. The posttest dietary supplement and antioxidant RAT scores for all Scholars were 67 ± 18% and 71 ± 14%. In adjusted models there were no significant associations between dietary supplement and antioxidant posttest RAT scores with Scholar characteristics. Change in RAT scores for dietary supplement and antioxidants were 25% ± 23 and 26% ± 27 (P < 0.0001). In adjusted models, there were no significant predictors of change in dietary supplement RATs. For antioxidant RATs, profession was associated with change in scores (P = 0.021). Improvement in Scholar’s test scores demonstrate the IOS program can significantly increase oncology providers’ knowledge of dietary supplements and antioxidants.
Disorder Parameter of Confinement
Creators: name: Nakamura, Naoki
name: Bornyakov, Vitaly
name: Ejiri, Shinji
name: Kitahara, Shun-ichi
name: Matsubara, Yoshimi
name: Suzuki, Tsuneo
Publisher: name: arXiv
Year: 1996
Subjects: subject: High Energy Physics - Lattice (hep-lat)
subject: FOS: Physical sciences

description: The disorder parameter of confinement-deconfinement phase transition based on the monopole action determined previously in $SU(2)$ QCD are investigated. We construct an operator which corresponds to the order parameter defined in the abelian Higgs model. The operator shows proper behaviors as the disorder parameter in the numerical simulations of finite temperature QCD.
description: 3 pages, latex, 1 figures, Talk presented at LATTICE96(topology)
Dark matter as an effect of the quantum vacuum
Creators: name: Santos, Emilio
Publisher: name: arXiv
Year: 2017
Subjects: subject: General Physics (physics.gen-ph)
subject: FOS: Physical sciences

description: The interaction between the quantum vacuum and a weak gravitational field is calculated for the vacuum fields of quantum electrodynamics. The result shows that the vacuum state is modified by the gravitational field, giving rise to a nonzero interaction energy. This suggests a model that fits in the main properties of the hypothetical dark matter in galactic haloes.
description: 26 pages. arXiv admin note: text overlap with arXiv:1702.03430 by other authors
Delivering a machine learning course on HPC resources
Creators: name: Legger, Federica
name: Bagnasco, Stefano
name: Lusso, Stefano
name: Fronze', Gabriele Gaetano
name: Vallero, Sara
Publisher: name: Zenodo
Year: 2019

description: In recent years proficiency in data science and machine learning (ML) became one of the most requested skills for jobs in both industry and academy. Machine learning algorithms typically require large sets of data to train the models and extensive usage of computing resources both for training and inference. Especially for deep learning algorithms, training performances can be dramatically improved by exploiting Graphical Processing Units (GPU). The needed skill set for a data scientist is therefore extremely broad, and ranges from knowledge of ML models to distributed programming on heterogeneous resources. While most of the available training resources focus on ML algorithms and tools such as TensorFlow, we designed a course for doctoral students where model training is tightly coupled with underlying technologies that can be used to dynamically provision resources. Throughout the course, students have access to OCCAM, an HPC facility at the University of Torino, managed using container-based cloud-like technologies, where Computing Applications are run on Virtual Clusters deployed on top of the physical infrastructure. Task scheduling over OCCAM resources is managed by an orchestration layer (such as Mesos or Kubernetes), leveraging Docker containers to define and isolate the runtime environment. The Virtual Clusters developed to execute ML workflows are accessed through a web interface based on JupyterHub. When a user authenticates on the Hub, a notebook server is created as a containerized application. A set of libraries and helper functions is provided to execute a parallelized ML task by automatically deploying a Spark driver and several Spark execution nodes as Docker containers. This solution automates the delivery of the software stack required by a typical ML workflow and enables scalability by allowing the execution of ML tasks, including training, over commodity (i.e. CPUs) or high-performance (i.e. GPUs) resources distributed over different hosts across a network.
Additional file 1: of Draft genome sequence of Fermentimonas caenicola strain SIT8, isolated from the human gut
Creators: name: Beye, Mamadou
name: Bakour, Sofiane
name: Sory Traore
name: Jaishriram Rathored
name: NoĂŠmie Labas
name: Raoult, Didier
name: Pierre-Edouard Fournier
Publisher: name: figshare
Year: 2018
Subjects: subject: Space Science
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Molecular Biology
subject: Evolutionary Biology
subject: 69999 Biological Sciences not elsewhere classified
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Table S1. Fatty acid composition of Fermentimonas caenicola strain SIT8. Table S2. Number of specific genes associated with the 25 general COG functional categories. (DOCX 59 kb)
Supplementary Figure 2. DMC targets PAD2 to activate histone citrullination. from Small molecule activates citrullination through targeting PAD2
Creators: name: Zhang, Xue
name: Shen, Mengzhen
name: Zhu, Huimin
name: Zhang, Junjie
name: Yang, Min
name: Su, Kaiyan
name: Zhang, Yirong
name: Fu, Wei
name: Ke, Xisong
name: Qu, Yi
Publisher: name: The Royal Society
Year: 2023

description: (A) CETSA assay of the engagement of PAD2 with the indicated compounds in HEK293T cells. Cells were incubated with DMSO or compound (10 μM) at 37 ℃ for 1 hour before heating at the indicated temperature. GAPDH was used as a loading control in Western blot. (B) CETSA assay of the engagement of PAD3 or PAD4 with the indicated compounds in HEK293T cells. All the other conditions were same as (A). (C) Immunofluorescent images of PAD2 in HEK293T cells treated with DMC (10 μM) for 24 hours. Scale bar: 50 μm. (D) Representative PLA images of Histone H3 (H3, 68345-1-Ig, Proteintech) interaction with PAD2 (12110-1-AP, Proteintech) or PAD4 (17373-1-AP, Proteintech) in HEK293T cells treated with DMC (10 μM) for 24 hours. Scale bar: 10 μm. (E) Representative PLA images of H3(17168-1-AP, Proteintech) interaction with PAD2 (66386-1-Ig, Proteintech) in HEK293T cells treated with DMC (10 μM) for 24 hours. Scale bar: 50 μm.
Analysis of Spreading Speeds with an Application to Cellular Neural Networks
Creators: name: Yu, Zhi-Xian
name: Zhang, Lei
Publisher: name: arXiv
Year: 2017
Subjects: subject: Dynamical Systems (math.DS)
subject: Classical Analysis and ODEs (math.CA)
subject: FOS: Mathematics
subject: 35C07, 34A33, 94C99

description: In this paper, we focus on some properties of the spreading speeds which can be estimated by linear operators approach, such as the sign, the continuity and a limiting case which admits no spreading phenomenon. These theoretical results are well applied to study the effect of templates on propagation speeds for cellular neural networks (CNNs), which admit three kinds of propagating phenomenon.
description: 19 pages, 9 figures
Theta and Riemann xi function representations from harmonic oscillator eigensolutions
Creators: name: Coffey, Mark W.
Publisher: name: arXiv
Year: 2006
Subjects: subject: Mathematical Physics (math-ph)
subject: FOS: Physical sciences
subject: 33C05, 42C05, 44A15, 44A20

description: From eigensolutions of the harmonic oscillator or Kepler-Coulomb Hamiltonian we extend the functional equation for the Riemann zeta function and develop integral representations for the Riemann xi function that is the completed classical zeta function. A key result provides a basis for generalizing the important Riemann-Siegel integral formula.
description: 15 pages, no figures, appears in Phys. Lett. A
Additional file 1 of Engineering of the fast-growing cyanobacterium Synechococcus sp. PCC 11901 to synthesize astaxanthin
Creators: name: Betterle, Nico
name: Gasparotto, Eliana
name: Battagini, Elia
name: Ceschi, Edoardo
name: Bellamoli, Francesco
name: Nixon, Peter J.
name: Ballottari, Matteo
Publisher: name: figshare
Year: 2025
Subjects: subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Environmental Sciences not elsewhere classified
subject: Ecology
subject: Developmental Biology
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Science Policy
subject: Plant Biology

description: Supplementary material 1: Figure S1. Absorption spectra in the visible light range of eluted fractions from HPLC analysis of extracts from WT and bKT cultures, as shown in Figure 2f. Figure S2. Comparison of astaxanthin accumulation in bKT transformants grown in flasks or in 80 ml airlift photobioreactors. Figure S3. Protein expression and RT-PCR analysis of Syn11901 wild type and transformants. Figure S4. HPLC, TLC and MS analysis of BC strain. Figure S5. Absorption spectra in the visible light range of pigments extracts from cultures grown 4 days in airlift PBRs and described in Figure 6.
A C++ library using quantum trajectories to solve quantum master equations
Creators: name: Schack, Ruediger
name: Brun, Todd A.
Publisher: name: arXiv
Year: 1996
Subjects: subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: Quantum trajectory methods can be used for a wide range of open quantum systems to solve the master equation by unraveling the density operator evolution into individual stochastic trajectories in Hilbert space. This C++ class library offers a choice of integration algorithms for three important unravelings of the master equation. Different physical systems are modeled by different Hamiltonians and environment operators. The program achieves flexibility and user friendliness, without sacrificing execution speed, through the way it represents operators and states in Hilbert space. Primary operators, implemented in the form of simple routines acting on single degrees of freedom, can be used to build up arbitrarily complex operators in product Hilbert spaces with arbitrary numbers of components. Standard algebraic notation is used to build operators and to perform arithmetic operations on operators and states. States can be represented in a local moving basis, often leading to dramatic savings of computing resources. The state and operator classes are very general and can be used independently of the quantum trajectory algorithms. Only a rudimentary knowledge of C++ is required to use this package.
description: 17 pages standard LaTeX + 3 figures (postscript). Submitted to Computer Physics Communications. Web site: http://galisteo.ma.rhbnc.ac.uk/applied/QSD.html
The conundrum of the notion of Permanent Establishment (PE) in Taxation of Tanzania’s e-commerce
Creators: name: Magoge, Jackson Simango
name: Hashimy, Sayed Qudrat
Publisher: name: figshare
Year: 2024
Subjects: classificationCode: 480102
subject: Commercial law
classificationCode: 480103
subject: Corporations and associations law
classificationCode: 480308
subject: International trade and investment law
classificationCode: 480408
subject: Law, science and technology
classificationCode: 480406
subject: Law reform

description: Purpose: To understand how Tanzania taxes digital commerce transactions, this paper explores the complex terrain of Permanent Establishment (PE). Design/Methodology/Approach: This study is analytical descriptive legal research. Secondary data sources encompass primary, secondary, and tertiary materials were used.Findings: The review’s outcome has revealed that this traditional notion of PE has historically worked well for taxing conventional businesses; however, the concept of PE, as defined by the Tanzanian Income Tax Act, has failed to address and cover e-commerce issues. Hence, the concept of PE requires substantial modifications to align with the contemporary and future challenges of e-commerce.Research Limitations: The study’s primary constraint is its restriction to a thorough review.Managerial Application: This study’s results are poised to provide significant guidance for reshaping tax legislation in Tanzania to align with modern challenges. Moreover, the study seeks to heighten public awareness regarding the Permanent Establishment and the taxation of digital commerce transactions while also serving as a valuable reference for future research ventures within the same domain. Originality/Value: This study offers a novel perspective on Tanzanian taxes and the connection between online transactions and permanent establishments.
Dealing with High Background Rates in Simulations of the STAR Heavy Flavor Tracker
Creators: name: Webb, Jason
name: LAURET, Jerome
name: Buren, Gene Van
name: Dong, Xin
name: Sooraj Krishnan Radhakrishnan
Publisher: name: Zenodo
Year: 2019

description: The STAR Heavy Flavor Tracker (HFT) has enabled a rich physics program, providing important insights into heavy quark behavior in heavy ion collisions. Acquiring data during the 2014 through 2016 runs at the Relativistic Heavy Ion Collider (RHIC), the HFT consisted of four layers of precision silicon sensors. Used in concert with the Time Projection Chamber (TPC), the HFT enables the reconstruction and topological identification of tracks arising from charmed hadron decays. The ultimate understanding of the detector efficiency and resolution demands large quantities of high quality simulations, accounting for the precise alignment of sensors, and the detailed response of the detectors and electronics to the incident tracks. The background environment presented additional challenges, as simulating the significant rates from pileup events accumulated during the long integration times of the tracking detectors could have quickly exceeded the available computational resources, and the relative contributions from different sources was unknown. STAR has long addressed these issues by embedding simulations into background events directly sampled during data taking at the experiment. This technique has the advantage of providing a completely realistic picture of the dynamic background environment while introducing minimal additional computational overhead compared to simulation of the primary collision alone, thus scaling to any luminosity. We will discuss how STAR has applied this technique to the simulation of the HFT, and will show how the careful consideration of misalignment of precision detectors and calibration uncertainties results in the detailed reproduction of basic observables, such as track projection to the primary vertex. We will further summarize the experience and lessons learned in applying these techniques to heavy-flavor simulations and discuss recent results.
CHEERS: The chemical evolution RGS sample
Creators: name: de Plaa, J.
name: Kaastra, J. S.
name: Werner, N.
name: Pinto, C.
name: Kosec, P.
name: Zhang, Y-Y.
name: Mernier, F.
name: Lovisari, L.
name: Akamatsu, H.
name: Schellenberger, G.
name: Hofmann, F.
name: Reiprich, T. H.
name: Finoguenov, A.
name: Ahoranta, J.
name: Sanders, J. S.
name: Fabian, A. C.
name: Pols, O.
name: Simionescu, A.
name: Vink, Jacco
name: Boehringer, H.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Astrophysics of Galaxies (astro-ph.GA)
subject: Cosmology and Nongalactic Astrophysics (astro-ph.CO)
subject: High Energy Astrophysical Phenomena (astro-ph.HE)
subject: FOS: Physical sciences

description: The chemical yields of supernovae and the metal enrichment of the hot intra-cluster medium (ICM) are not well understood. This paper introduces the CHEmical Enrichment RGS Sample (CHEERS), which is a sample of 44 bright local giant ellipticals, groups and clusters of galaxies observed with XMM-Newton. This paper focuses on the abundance measurements of O and Fe using the reflection grating spectrometer (RGS). The deep exposures and the size of the sample allow us to quantify the intrinsic scatter and the systematic uncertainties in the abundances using spectral modeling techniques. We report the oxygen and iron abundances as measured with RGS in the core regions of all objects in the sample. We do not find a significant trend of O/Fe as a function of cluster temperature, but we do find an intrinsic scatter in the O and Fe abundances from cluster to cluster. The level of systematic uncertainties in the O/Fe ratio is estimated to be around 20-30%, while the systematic uncertainties in the absolute O and Fe abundances can be as high as 50% in extreme cases. We were able to identify and correct a systematic bias in the oxygen abundance determination, which was due to an inaccuracy in the spectral model. The lack of dependence of O/Fe on temperature suggests that the enrichment of the ICM does not depend on cluster mass and that most of the enrichment likely took place before the ICM was formed. We find that the observed scatter in the O/Fe ratio is due to a combination of intrinsic scatter in the source and systematic uncertainties in the spectral fitting, which we are unable to disentangle. The astrophysical source of intrinsic scatter could be due to differences in AGN activity and ongoing star formation in the BCG. The systematic scatter is due to uncertainties in the spatial line broadening, absorption column, multi-temperature structure and the thermal plasma models. (Abbreviated).
description: 16 pages, 13 figures, accepted for publication in A&A
Bâle, Universitätsbibliothek, fa 191, fol. I, [1]r (Gregorius Digital D7-8)
Creators: name: :Unkn
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2025

description: Cette image provient de l'exemplaire Munich, Bâle, Universitätsbibliothek, fa 191, fol. I, [1]r, de l'édition « Der Heiligen Leben », Bâle, Adam Petri, 1511, contient le titre et est éditée dans le cadre du projet Gregorius Digital sous le sigle D7-8 (dir. Peter Andersen – ARCHE UMR 3400 – Université de Strasbourg)