cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Genetic and genomic investigations of Amyotrophic lateral sclerosis
Creators: name: McCann, Emily Pamela
Publisher: name: Macquarie University
Year: 2022
Subjects: Other education not elsewhere classified

description: Amyotrophic lateral sclerosis (ALS) is a fatal, genetically heterogeneous neurodegenerative disease characterised by the loss of upper and lower motor neurons. Gene mutations remain the only proven cause of ALS. While 10% of patients have a family history (familial ALS; FALS), one third of these patients carry an unidentified causal mutation. Among the remaining 90% of apparently sporadic patients (sporadic ALS; SALS), less than 10% carry a known causal mutation. As such, a significant amount of genetic variation underlying ALS remains to be discovered. This thesis presents innovative approaches to identify novel genetic causes of ALS using next-generation sequencing (NGS). This involved the development and application of various bioinformatics strategies to whole-exome (WES) and whole-genome (WGS) sequencing datasets for various patient cohorts including FALS patients, families and ALS-discordant monozygotic twins. Assessment of the prevalence of known and candidate ALS genes among Australian patients revealed that 39.2% of FALS had an unidentified causal gene mutation, and identified eight candidate ALS mutations. Novel ALS gene discovery in four small families identified 19, 11, 16 and 64 candidate causal mutations in each. Having exhausted the genetic power of these families, an in silico pipeline was developed to assess the potential pathogenicity of each candidate mutation. This showed that five, six, one and 11 candidate mutations had a high potential to cause ALS. Gene discovery efforts in a fifth family using WES, WGS and genetic linkage data failed to identify any candidate mutations, however narrowed the search to just 14% of the genome. WGS of four ALS-discordant monozygotic twinsets also failed to identify any de novo mutations underlying disease discordance. This work expands our understanding of the genetic causes of ALS, and in turn provides much needed insight for the development of diagnostic and carrier-screening regimes, as well as relevant models of disease.
Metallicities in long GRB host galaxies at z$
Creators: name: Contini, M.
Publisher: name: arXiv
Year: 2016
Subjects: subject: Astrophysics of Galaxies (astro-ph.GA)
subject: FOS: Physical sciences

description: We revisited the line spectra emitted from long GRB (LGRB) host galaxies at z<0.5 in order to calculate by the detailed modelling of the line ratios the physical conditions and relative abundances in LGRB hosts in this redshift range. We have found lower metallicities than in LGRB hosts at higher z. New results about metallicities and physical conditions in the different regions throughout the LGRB 980425 host at z=0.0085 are presented. In particular, we have found that the effective starburst temperature in the supernova (SN) region is the highest throughout the host galaxy. The low ionization parameter reveals that the radiation source is far or somehow prevented from reaching the emitting gas in the SN region. The models constrained by a few oxygen, nitrogen and sulphur line ratios to Hb in LGRB 980425 host satisfactorily reproduce the HeII/Hb and [ArIII]/Hb line ratios. The modelling of the observed [SIV]10.51μ/[SIII]18.71\mum and [NeIII]10.6\mum/[NeII]12.81\mum line ratios from LGRB 031203 host galaxy at z=0.105 shows that the mid-IR lines are emitted from geometrically thin shock dominated filaments which are not reached by the photoionizing flux, while the optical lines are emitted from the radiation dominated outflowing clouds.
description: 13 pages, 6 figures, accepted for publication in the MNRAS
Note Illustrative della Carta geologica d'Italia alla scala 1:50.000 F. 201 Modena, Servizio Geologico d'Italia - ISPRA
Creators: name: Gasperi, G.
name: Pizziolo, M.
Publisher: name: INFN Open Access Repository
Year: 2024
Subjects: carta geologica, Modena, Emilia-Romagna, Pianura Padana, CARG, stratigrafia, tettonica, sottosuolo, geological map, stratigraphy, tectonics, subsurface

description: Note illustrative redatte per il Foglio geologico n. 201 Modena della Carta Geologica d'Italia alla scala 1:50.000. 76 pp.
Superwind evolution: the young starburst-driven wind galaxy NGC 2782
Creators: name: Bravo-Guerrero, Jimena
name: Stevens, Ian R.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Astrophysics of Galaxies (astro-ph.GA)
subject: FOS: Physical sciences

description: We present results from a 30 ksec Chandra observation of the important starburst galaxy NGC 2782, covering the 0.3-10keV energy band. We find evidence of a superwind of small extent, that is likely in an early stage of development. We find a total of 27 X-ray point sources within a region of radius 2$D_{25}$ of the galaxy centre and which are likely associated with the galaxy. Of these, 13 are ULXs ($L_{X}\geq 10^{39}~ erg s ^{-1}$) and a number have likely counterparts. The X-ray luminosities of the ULX candidates are $1.2-3.9\times10^{39}~ erg s ^{-1}$. NGC2782 seems to have an unusually large number of ULXs. Central diffuse X-ray emission extending to ~ 3kpc from the nuclear region has been detected. We also find an X-ray structure to the south of the nucleus, coincident with Hα filaments and with a 5 GHz radio source. We interpret this as a blow-out region of a forming superwind. This X-ray bubble has a total luminosity (0.3-10 keV) of $5\times10^{39}erg s ^{-1}$ (around $15\%$ of the total luminosity of the extended emission), and an inferred wind mass of $1.5\times10^{6}$ M$_\odot$. We also discuss the nature of the central X-ray source in NGC2782, and conclude that it is likely a low-luminosity AGN (LLAGN), with a total X-ray luminosity of $L_{X}=6\times10^{40}~erg s ^{-1}$ with strong Fe line emission at 6.4 keV.
description: 14 pages, 14 figures, 3 tables. Accepted for publication in MNRAS
Streptococcus pyogenes emm98.1 variants activate inflammatory caspases in human neutrophils
Creators: name: Williams, Jonathan G.
name: Sluyter, Ronald
name: Sanderson-Smith, Martina L.
Publisher: name: Taylor & Francis
Year: 2023
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Physiology
subject: Science Policy
subject: Immunology
subject: FOS: Clinical medicine
subject: Infectious Diseases
subject: FOS: Health sciences

description: The human pathogen Streptococcus pyogenes (Group A Streptococcus, GAS) is responsible for invasive disease characterized by inflammation and tissue destruction. Inflammatory symptoms of invasive disease may be attributed to the neutrophil response during the early stages of infection. Here, the human neutrophil response to GAS was characterized in vitro using emm98.1 type covS mutant GAS strain NS88.2 (isolated from invasive infection) and avirulent variant NS88.2rep. NS88.2 was shown to resist phagocytic killing and proliferate in the presence of human neutrophils, where neutrophil antimicrobial defence through the production of reactive oxygen species was reduced compared with NS88.2rep. In the presence of NS88.2, neutrophil death was delayed compared with NS88.2rep. Infection with either GAS strain induced expression of inflammatory caspases-1 and -4 in neutrophils, with increased detection of activated inflammatory caspases in response to NS88.2rep compared with NS88.2. NS88.2 infection caused differential expression of cell-surface CD66b, CD16, and CD31, when compared to NS88.2rep. We conclude that the neutrophil response to NS88.2 promotes inflammation and may be a contributing factor to the severity of invasive GAS infections. CovRS, control of virulence regulatory system; GAS, Group A Streptococcus; PMN, polymorphonuclear leukocyte.
Identification of an immunodominant region on a group A Streptococcus T-antigen reveals temperature-dependent motion in pili
Creators: name: Raynes, Jeremy M.
name: Young, Paul G.
name: Lorenz, Natalie
name: Loh, Jacelyn M.S.
name: McGregor, Reuben
name: Baker, Edward N.
name: Proft, Thomas
name: Moreland, Nicole J.
Publisher: name: Taylor & Francis
Year: 2023
Subjects: subject: Physical Sciences not elsewhere classified
subject: Microbiology
subject: FOS: Biological sciences
subject: Biotechnology
subject: Chemical Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Computational Biology

description: Group A Streptococcus (GAS) is a globally important pathogen causing a broad range of human diseases. GAS pili are elongated proteins with a backbone comprised repeating T-antigen subunits, which extend from the cell surface and have important roles in adhesion and establishing infection. No GAS vaccines are currently available, but T-antigen-based candidates are in pre-clinical development. This study investigated antibody-T-antigen interactions to gain molecular insight into functional antibody responses to GAS pili. Large, chimeric mouse/human Fab-phage libraries generated from mice vaccinated with the complete T18.1 pilus were screened against recombinant T18.1, a representative two-domain T-antigen. Of the two Fab identified for further characterization, one (designated E3) was cross-reactive and also recognized T3.2 and T13, while the other (H3) was type-specific reacting with only T18.1/T18.2 within a T-antigen panel representative of the major GAS T-types. The epitopes for the two Fab, determined by x-ray crystallography and peptide tiling, overlapped and mapped to the N-terminal region of the T18.1 N-domain. This region is predicted to be buried in the polymerized pilus by the C-domain of the next T-antigen subunit. However, flow cytometry and opsonophagocytic assays showed that these epitopes were accessible in the polymerized pilus at 37°C, though not at lower temperature. This suggests that there is motion within the pilus at physiological temperature, with structural analysis of a covalently linked T18.1 dimer indicating “knee-joint” like bending occurs between T-antigen subunits to expose this immunodominant region. This temperature dependent, mechanistic flexing provides new insight into how antibodies interact with T-antigens during infection.
Acute and sub-acute oral toxicity assessment of 5-hydroxy-1,4-naphthoquinone in mice
Creators: name: Gohil, Dievya
name: Panigrahi, Girish Ch.
name: Gupta, Saurabh Kumar
name: Gandhi, Khushboo A.
name: Gera, Poonam
name: Chavan, Preeti
name: Sharma, Deepak
name: Sandur, Santosh
name: Gota, Vikram
Publisher: name: Taylor & Francis
Year: 2022
Subjects: subject: Biochemistry
subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Neuroscience
subject: Physiology
subject: Pharmacology
subject: Biotechnology
subject: Environmental Sciences not elsewhere classified
subject: Chemical Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Mental Health
subject: Hematology
subject: Virology

description: 5-hydroxy-1,4-naphthoquinone (5NQ) or juglone is a bioactive molecule found in walnuts and has shown therapeutic effects in various disease models. Limited information is available regarding the toxicity of 5NQ, thereby limiting the clinical development of this drug. In the present study, oral acute (50, 300 and 2000 mg/kg) and sub-acute toxicity (5, 15 and 50 mg/kg) was assessed in mice to evaluate the safety of 5NQ. The acute toxicity study identified 118 mg/kg as the point-of-departure dose (POD) for single oral administration of 5NQ using benchmark dose modeling (BMD). Repeated administration of 5NQ at doses of 15 and 50 mg/kg/day caused reduction in food consumption and body weight of mice along with alterations in liver and renal function. Histopathological assessment revealed significant damage to hepatic and renal tissues at all doses in the acute toxicity study, and at higher doses of 15 and 50 mg/kg in the sub-acute toxicity study. We observed dose dependent mortality in sub-acute toxicity study and the no observed adverse effect level (NOAEL) was established as < 5 mg/kg/day. Modeling the survival response in sub-acute toxicity study identified 1.74 mg/kg/day as the POD for repeated administration of 5NQ. Serum levels of aspartate aminotransferase (AST) were most sensitive to 5NQ administration with a lower limit of BMD interval (BMDL) of 1.1 × 10−3 mg/kg/day. The benchmark doses reported in the study can be further used to determine a reference dose of 5NQ for human risk assessment.
Additional file 3: Figure S1. of Transcriptome analysis of ruminal epithelia revealed potential regulatory mechanisms involved in host adaptation to gradual high fermentable dietary transition in beef cattle
Creators: name: K. Zhao
name: Y. Chen
name: G. Penner
name: M. Oba
name: L. Guan
Publisher: name: figshare
Year: 2017
Subjects: subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Ecology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Plant Biology
subject: Computational Biology

description: The patterns of ions transportation related genes expression in DG and UP. The legend represents the RPM value scaled by rows, the blue means highly expressed in the 72% grain and yellow means highly expressed in the 89% grain. The data were analyzed by T-test, * indicated P
A Fokker-Planck reaction model for the epitaxial growth and shape transition of quantum dots
Creators: name: Wei, Chaozhen
name: Spencer, Brian J.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Statistical Mechanics (cond-mat.stat-mech)
subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: We construct a Fokker-Planck reaction model to investigate the dynamics of the coupled epitaxial growth and shape transition process of an array of quantum dots. The Fokker-Planck reaction model is based on a coupled system of Fokker-Planck equations wherein the distribution of each island type is governed by its own Fokker-Planck equation for growth, with reaction terms describing the shape transitions between islands of different types including asymmetric shapes. The reaction terms for the shape transitions depend on the island size and are determined from explicit calculations of the lowest-barrier pathway for each shape transition. This mean-field model enables us to consider the kinetics of asymmetric shape transitions and study the evolution of island shape distributions during the coupled growth and transition process. Through numerical simulations over a range of growth parameters, we find multimodal and unimodal evolution modes of the shape distribution of island arrays, which depend on the external deposition flux rate and temperature rather than the shape transition rate. However, the shape transition rate governs the kinetics of shape transitions and determines the fraction of islands that form via asymmetric states, which has implications for the development of asymmetric composition profiles within alloy islands.
description: 26 pages, 7 figures
Supplementary document for Simultaneous super-resolution estimation of single-molecular position and orientation with minimal photon fluxes - 5826527.pdf
Creators: name: Zhan, Zhengyi
name: Li, Chuankang
name: Liu, Xin
name: Sun, Xiaofan
name: He, Chenyin
name: Kuang, Cuifang
name: Liu, Xu
Publisher: name: Optica Publishing Group
Year: 2022
Subjects: Uncategorized

description: Supplement 1
A distinct variant of the SzM protein of Streptococcus equi subsp. zooepidemicus recruits C1q independent of IgG binding and inhibits activation of the classical complement pathway
Creators: name: Bergmann, René
name: Schroedl, Wieland
name: Müller, Uwe
name: Baums, Christoph Georg
Publisher: name: Taylor & Francis
Year: 2023
Subjects: subject: Biochemistry
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Molecular Biology
subject: Physiology
subject: Pharmacology
subject: Immunology
subject: FOS: Clinical medicine
subject: Developmental Biology
subject: Hematology
subject: Infectious Diseases
subject: FOS: Health sciences

description: Streptococcus equi subsp. zooepidemicus (SEZ) is a major equine pathogen that causes pneumonia, abortion, and polyarthritis. It can also cause invasive infections in humans. SEZ expresses the M-like protein SzM, which recruits host proteins such as fibrinogen to the bacterial surface. Equine SEZ strain C2, which binds only comparably low amounts of human fibrinogen in comparison to human SEZ strain C33, was previously shown to proliferate in equine and human blood. As the expression of SzM_C2 was necessary for survival in blood, this study investigated the working hypothesis that SzM_C2 inhibits complement activation through a mechanism other than fibrinogen and non-immune immunoglobulin binding. Loss-of-function experiments showed that SEZ C2, but not C33, binds C1q via SzM in IgG-free human plasma. Furthermore, SzM C2 expression is necessary for recruiting purified human or equine C1q to the bacterial surface. Flow cytometry analysis demonstrated that SzM expression in SEZ C2 is crucial for the significant reduction of C3b labelling in human plasma. Addition of human plasma to immobilized rSzM_C2 and immobilized aggregated IgG led to binding of C1q, but only the latter activated the complement system, as shown by the detection of C4 deposition. Complement activation induced by aggregated IgG was significantly reduced if human plasma was pre-incubated with rSzM_C2. Furthermore, rSzM_C2, but not rSzM_C33, inhibited the activation of the classical complement pathway in human plasma, as determined in an erythrocyte lysis experiment. In conclusion, the immunoglobulin-independent binding of C1q to SzM_C2 is associated with complement inhibition.
Surface magnetism of cool stars
Creators: name: Kochukhov, O.
name: Petit, P.
name: Strassmeier, K. G.
name: Carroll, T. A.
name: Fares, R.
name: Folsom, C. P.
name: Jeffers, S. V.
name: Korhonen, H.
name: Monnier, J. D.
name: Morin, J.
name: Rosen, L.
name: Roettenbacher, R. M.
name: Shulyak, D.
Publisher: name: arXiv
Year: 2016
Subjects: subject: Solar and Stellar Astrophysics (astro-ph.SR)
subject: FOS: Physical sciences

description: Magnetic fields are essential ingredients of many physical processes in the interiors and envelopes of cool stars. Yet their direct detection and characterisation is notoriously difficult, requiring high-quality observations and advanced analysis techniques. Significant progress has been recently achieved by several types of direct magnetic field studies on the surfaces of cool active stars. In particular, complementary techniques of the field topology mapping with polarisation data and total magnetic flux measurements from intensity spectra have been systematically applied to different classes of active stars leading to interesting and occasionally controversial results. In this paper we summarise the current status of direct magnetic field studies of cool stars, and investigations of surface inhomogeneities caused by the field, based on the material presented at the Cool Stars 19 splinter session.
description: Summary of the splinter session "Surface Magnetism of Cool Stars" at the Cool Stars 19 conference; to be published in Astronomische Nachrichten
Additional file 2: of Latent class models for Echinococcus multilocularis diagnosis in foxes in Switzerland in the absence of a gold standard
Creators: name: Belen Otero-Abad
name: Armua-Fernandez, Maria
name: Deplazes, Peter
name: Torgerson, Paul
name: Hartnack, Sonja
Publisher: name: figshare
Year: 2017
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: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Bayesian latent-class model code for three diagnostic tests. (DOC 33Â kb)
Copy number variation of MYLK4 gene and its growth traits of Capra hircus (goat)
Creators: name: Shi, Shu-Yue
name: Li, Li-Juan
name: Zhang, Zi-Jing
name: Wang, Er-Yao
name: Wang, Jian
name: Xu, Jia-Wei
name: Liu, Hong-Bing
name: Wen, Yi-Fan
name: He, Hua
name: Lei, Chu-Zhao
name: Chen, Hong
name: Huang, Yong-Zhen
Publisher: name: Taylor & Francis
Year: 2019
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Physiology
subject: Evolutionary Biology
subject: Environmental Sciences not elsewhere classified
subject: Ecology
subject: Biological Sciences not elsewhere classified
subject: Mental Health
subject: Plant Biology
subject: Virology

description: Copy number variation (CNV) is a form of genetic variation caused by genome rearrangement, with abnormal fragments ranging from 50 bp to Mb. And, CNV is closely related to disease, growth and reproductive shape of livestock. As a member of myosin light chain kinase (MYLK) family with serine/threonine specificity, MYLK4 belongs to an enzyme encoded by MYLK4 gene. Although MYLK4 is a recognized kinase, its function has yet to be revealed in subsequent studies. This study aims to analyze CNV and genetic effects of MYLK4 gene in goats. We used qPCR to detect CNV of MYLK4 gene in African Nubian goat (n = 32), Guizhou black goat (n = 196) and Guizhou white goat (n = 95), respectively, and correlated CNV data of MYLK4 gene with goat growth traits in Chinese goats. The results showed that the effect of MYLK4 gene CNV on body weight, body length and body height of goats had significantly different (p < 0.05, Q < 0.05), in which CNV showed better growth traits in type of deletion. Therefore, CNV of MYLK4 gene can be used as a molecular marker for assisted selection of goat growth traits, which provides a theoretical basis for the genetic improvement of goat breeds in China.
S-matrix singularities and CFT correlation functions
Creators: name: Cardona, Carlos
name: Huang, Yu-tin
Publisher: name: arXiv
Year: 2017
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: In this note, we explore the correspondence between four-dimensional flat space S-matrix and two-dimensional CFT proposed by Pasterski et al. We demonstrate that the factorization singularities of an n-point cubic diagram reproduces the AdS Witten diagrams if mass conservation is imposed at each vertex. Such configuration arises naturally if we consider the 4-dimensional S-matrix as a compactified massless 5-dimensional theory. This identification allows us to rewrite the massless S-matrix in the CHY formulation, where the factorization singularities are re-interpreted as factorization limits of a Riemann sphere. In this light, the map is recast into a form of 2d/2d correspondence.
description: 18 pages
Additional file 2: of Effects of hydrophilic polymer-coated polysulfone membrane dialyzers on intradialytic hypotension in diabetic hemodialysis patients (ATHRITE BP Study): a pilot study
Creators: name: Tsuchida, Kenji
name: Hashimoto, Hirofumi
name: Kawahara, Kazuhiko
name: Ikuro Hayashi
name: Fukata, Yoshio
name: Munenori Kashiwagi
name: Yamashita, Akihiro
name: Mineshima, Michio
name: Tomo, Tadashi
name: Ikuto Masakane
name: Takemoto, Yoshiaki
name: Kawanishi, Hideki
name: Nagai, Kojiro
name: Minakuchi, Jun
Publisher: name: figshare
Year: 2017
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Marine Biology
subject: Science Policy

description: Dialyzers of PS/PES group. (PDF 57Â kb)
RDM Frequently Asked Questions
Creators: name: Flohr, Pascal
name: Verburg, Maaike
Publisher: name: Zenodo
Year: 2024

description: During our training events, we often discuss with the audience, consisting of data stewards and other research supporters, what sort of information researchers need. Specifically, during a 2023 training course on FAIR organised by the DCC-PO, we gathered frequently asked questions about FAIR data. Below, you can find a selection of these questions, accompanied by answers and sources for further information.

 

This FAQ is published on the DANS website and will be continuously updated: https://dans.knaw.nl/en/training-faq/
Photon echoes from (In,Ga)As quantum dots embedded in a Tamm-plasmon microcavity
Creators: name: Salewski, M.
name: Poltavtsev, S. V.
name: Kapitonov, Yu. V.
name: Vondran, J.
name: Yakovlev, D. R.
name: Schneider, C.
name: Kamp, M.
name: Höfling, S.
name: Oulton, R.
name: Akimov, I. A.
name: Kavokin, A. V.
name: Bayer, M.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: We report on the coherent optical response from an ensemble of (In,Ga)As quantum dots (QDs) embedded in a planar Tamm-plasmon microcavity with a quality factor of approx. 100. Significant enhancement of the light-matter interaction is demonstrated under selective laser excitation of those quantum dots which are in resonance with the cavity mode. The enhancement is manifested through Rabi oscillations of the photon echo, demonstrating coherent control of excitons with picosecond pulses at intensity levels more than an order of magnitude smaller as compared with bare quantum dots. The decay of the photon echo transients is weakly changed by the resonator indicating a small decrease of the coherence time $T_2$ which we attribute to the interaction with the electron plasma in the metal layer located close (40nm) to the QD layer. Simultaneously we see a reduction of the population lifetime $T_1$, inferred from the stimulated photon echo, due to an enhancement of the spontaneous emission by a factor of 2, which is attributed to the Purcell effect, while non-radiative processes are negligible as confirmed from time-resolved photoluminescence.
description: 7 pages, 5 figures
Finite Element Analysis of Titanium-based Hip Implant Modified Surfaces
Creators: name: Vulović, Aleksandra
name: Warchomicka, Fernando
name: Pixner, Florian
name: Filipović, Nenad
Publisher: name: Zenodo
Year: 2024

description: Presented at Joint KMM-VIN / ViCEM / ESB cross-disciplinary workshop on Biomedical and bioinspired materials and structures: a cross-disciplinary approach combining the 9th KMM-VIN Industrial  Workshop Biennial ViCEM Meeting Austrian Chapter Meeting of ESB.
Quantum walks with an anisotropic coin I: spectral theory
Creators: name: Richard, S.
name: Suzuki, A.
name: de Aldecoa, R. Tiedra
Publisher: name: arXiv
Year: 2017
Subjects: subject: Mathematical Physics (math-ph)
subject: Spectral Theory (math.SP)
subject: FOS: Physical sciences
subject: FOS: Mathematics

description: We perform the spectral analysis of the evolution operator U of quantum walks with an anisotropic coin, which include one-defect models, two-phase quantum walks, and topological phase quantum walks as special cases. In particular, we determine the essential spectrum of U, we show the existence of locally U-smooth operators, we prove the discreteness of the eigenvalues of U outside the thresholds, and we prove the absence of singular continuous spectrum for U. Our analysis is based on new commutator methods for unitary operators in a two-Hilbert spaces setting, which are of independent interest.
description: 26 pages
The F1Fo-ATP synthase α subunit of Candida albicans induces inflammatory responses by controlling amino acid catabolism
Creators: name: Li, Shuixiu
name: Liu, Yuting
name: Weng, Luobei
name: Zhao, Yajing
name: Zhang, Yishan
name: Zhang, Zhanpeng
name: Yang, Yang
name: Chen, Qiaoxin
name: Liu, Xiaocong
name: Zhang, Hong
Publisher: name: Taylor & Francis
Year: 2023
Subjects: subject: Biophysics
subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Molecular Biology
subject: Physiology
subject: Pharmacology
subject: Chemical Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Marine Biology
subject: Plant Biology

description: Sepsis is a leading cause of fatality in invasive candidiasis. The magnitude of the inflammatory response is a determinant of sepsis outcomes, and inflammatory cytokine imbalances are central to the pathophysiological processes. We previously demonstrated that a Candida albicans F1Fo-ATP synthase α subunit deletion mutant was nonlethal to mice. Here, the potential effects of the F1Fo-ATP synthase α subunit on host inflammatory responses and the mechanism were studied. Compared with wild-type strain, the F1Fo-ATP synthase α subunit deletion mutant failed to induce inflammatory responses in Galleria mellonella and murine systemic candidiasis models and significantly decreased the mRNA levels of the proinflammatory cytokines IL-1β, IL-6 and increased those of the anti-inflammatory cytokine IL-4 in the kidney. During C. albicans-macrophage co-culture, the F1Fo-ATP synthase α subunit deletion mutant was trapped inside macrophages in yeast form, and its filamentation, a key factor in inducing inflammatory responses, was inhibited. In the macrophage-mimicking microenvironment, the F1Fo-ATP synthase α subunit deletion mutant blocked the cAMP/PKA pathway, the core filamentation-regulating pathway, because it failed to alkalinize environment by catabolizing amino acids, an important alternative carbon source inside macrophages. The mutant downregulated Put1 and Put2, two essential amino acid catabolic enzymes, possibly due to severely impaired oxidative phosphorylation. Our findings reveal that the C. albicans F1Fo-ATP synthase α subunit induces host inflammatory responses by controlling its own amino acid catabolism and it is significant to find drugs that inhibit F1Fo-ATP synthase α subunit activity to control the induction of host inflammatory responses.
A new gene family (BAPs) of Cotesia bracovirus induces apoptosis of host hemocytes
Creators: name: Wang, Ze-Hua
name: Ye, Xi-Qian
name: Wu, Xiao-Tong
name: Wang, Zhi-Zhi
name: Huang, Jian-Hua
name: Chen, Xue-Xin
Publisher: name: Taylor & Francis
Year: 2023
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Molecular Biology
subject: Physiology
subject: Evolutionary Biology
subject: Environmental Sciences not elsewhere classified
subject: Ecology
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Cancer

description: Polydnaviruses (PDVs), obligatory symbionts with parasitoid wasps, function as host immune suppressors and growth and development regulator. PDVs can induce host haemocyte apoptosis, but the underlying mechanism remains largely unknown. Here, we provided evidence that, during the early stages of parasitism, the activated Cotesia vestalis bracovirus (CvBV) reduced the overall number of host haemocytes by inducing apoptosis. We found that one haemocyte-highly expressed CvBV gene, CvBV-26-4, could induce haemocyte apoptosis. Further analyses showed that CvBV-26-4 has four homologs from other Cotesia bracoviruses and BV from wasps in the genus Glyptapanteles, and all four of them possessed a similar structure containing 3 copies of a well-conserved motif (Gly-Tyr-Pro-Tyr, GYPY). Mass spectrometry analysis revealed that CvBV-26-4 was secreted into plasma by haemocytes and then degraded into peptides that induced the apoptosis of haemocytes. Moreover, ectopic expression of CvBV-26-4 caused fly haemocyte apoptosis and increased the susceptibility of flies to bacteria. Based on this research, a new family of bracovirus genes, Bracovirus apoptosis-inducing proteins (BAPs), was proposed. Furthermore, it was discovered that the development of wasp larvae was affected when the function of CvBV BAP was obstructed in the parasitized hosts. The results of our study indicate that the BAP gene family from the bracoviruses group is crucial for immunosuppression during the early stages of parasitism.
Quantum reduced loop gravity: extension to gauge vector field
Creators: name: Bilski, Jakub
name: Alesci, Emanuele
name: Cianfrani, Francesco
name: Donà, Pietro
name: Marciano, Antonino
Publisher: name: arXiv
Year: 2016
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: FOS: Physical sciences

description: Within the framework of Quantum Reduced Loop Gravity we quantize the Hamiltonian for a gauge vector field. The regularization can be performed using tools analogous to the ones adopted in full Loop Quantum Gravity, while the matrix elements of the resulting operator between basis states are analytic coefficients. This analysis is the first step towards deriving the full quantum gravity corrections to the vector field semiclassical dynamics.
description: 14 pages, typos corrected, improved notation to describe the kinematical states. arXiv admin note: text overlap with arXiv:1506.08579
Removal of aniline from water by an Fe(II)-nano-Fe3O4@PAC heterogeneous catalyst in a Fenton-like process
Creators: name: Yang, Chunwei
name: Wang, Dong
name: Tang, Qian
name: MacRae, Julia Youst
Publisher: name: Taylor & Francis
Year: 2019
Subjects: subject: Biophysics
subject: Biochemistry
subject: Physical Sciences not elsewhere classified
subject: Microbiology
subject: FOS: Biological sciences
subject: Environmental Sciences not elsewhere classified
subject: Chemical Sciences not elsewhere classified
subject: Biological Sciences not elsewhere classified
subject: Virology

description: Aniline is a toxic chemical, and in many industries it is degraded by Fenton processes. In this study, an Fe(II)-nano-Fe3O4@PAC heterogeneous Fenton catalyst (MFC) was prepared with a coprecipitation and impregnation method, which is simple, efficient and cost effective. The results of the magnetic performance tests showed that the MFC has typical ferromagnetism properties. Nano-Fe3O4 was found both on the surface and inside the pores of the powdered activated carbon (PAC). MFC was found to be an efficient catalyst in the Fenton-like process for aniline degradation. The optimal conditions were obtained by the orthogonal experimental method. The results showed that under the optimal conditions (pH = 3.00, temperature = 20°C, concentration of MFC = 1.0 g/L, concentration of H2O2 = 0.27 g/L), the 5 mg/L aniline solution degradation ratio reached 91.2% and the mineralization ratio reached 75.77% in 30 min. In addition, kinetics studies indicated that the aniline degradation process follows a pseudo-first-order kinetics model. No refractory intermediate such as azobenzene, was found during the reaction. The pH value is an important factor in aniline solution degradation. This result indicates that in addition to the surface catalytic reaction, the Fenton reaction also occurs in solution. Fe2+/Fe3+ on the MFC surface and Fe2+/Fe3+ in solution both affect aniline degradation. This catalyst has the advantage of being easily magnetically separated from the aqueous phase. It has useful application prospects in solving organic industrial wastewater pollutions in developing countries because of its cost-effectiveness.
Andreev Reflection without Fermi surface alignment in High T$_{c}$-Topological heterostructures
Creators: name: Zareapour, Parisa
name: Hayat, Alex
name: Zhao, Shu Yang F.
name: Kreshchuk, Michael
name: Xu, Zhijun
name: Liu, T. S.
name: Gu, G. D.
name: Jia, Shuang
name: Cava, Robert J.
name: Yang, H. -Y.
name: Ran, Ying
name: Burch, Kenneth S.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Superconductivity (cond-mat.supr-con)
subject: Strongly Correlated Electrons (cond-mat.str-el)
subject: FOS: Physical sciences

description: We address the controversy over the proximity effect between topological materials and high T$_{c}$ superconductors. Junctions are produced between Bi$_{2}$Sr$_{2}$CaCu$_{2}$O$_{8+δ}$ and materials with different Fermi surfaces (Bi$_{2}$Te$_{3}$ \& graphite). Both cases reveal tunneling spectra consistent with Andreev reflection. This is confirmed by magnetic field that shifts features via the Doppler effect. This is modeled with a single parameter that accounts for tunneling into a screening supercurrent. Thus the tunneling involves Cooper pairs crossing the heterostructure, showing the Fermi surface mis-match does not hinder the ability to form transparent interfaces, which is accounted for by the extended Brillouin zone and different lattice symmetries.
Wekwek en Wokwok Mijimit Bla Faindim Dismob Stori Blanga Yurapanji: working and walking together to find these stories about Urapunga
Creators: name: Tait, Lillian
Publisher: name: Macquarie University
Year: 2022
Subjects: Other education not elsewhere classified

description: Nestled between the Roper and Wilton Rivers of Ngalakgan Country in the Northern Territory of Australia lies Urapunga, a small and lively Aboriginal community predominately comprised of the Duncan family group. Tales of how the Duncans have lived on their land and re-gained ownership over it are celebrated locally. These stories are regionally unique and rich with emotion, multi-dimensional characters and embodied environments. Responding to calls within the community to record these stories, Lillian Tait and Ngalakgan and Ritharrŋu Elders Margaret and Rhonda Duncan co-designed a collaborative and decolonising research project. It involved talking stories, sharing on Country, participatory creative methods, archival research and co-analysis. The stories that emerged will be the heart of a bi-lingual book to be co-authored post-thesis. This thesis documents and reflects on the process of doing this storying research together as part of a cross-cultural collaboration. By mobilising a recuperative storytelling agenda as advocated by Rose (2004) and Margaret, it engages with the way stories build connections between those living, and connect those living with ancestors, future generations and Country, in relationships of belonging, responsibility and care. The thesis demonstrates how nurturing diverse academic/non-academic and more-than human collaborations within research can challenge some of the deep-colonising legacies of academia -- abstract.
Analytical Method Development and Validation of Dapagliflozin in Bulk Drug and Pharmaceutical Dosage Form by U-HPLC Method
Creators: name: Chavhan PG
name: Dr. Patil SA
name: Dr. Pawar SP
Publisher: name: Zenodo
Year: 2024

description: Abstract

The aim of this study is to develop a rapid, precise and accurate UHPLC method for the estimation of Dapagliflozin in bulk and tablet dosage form as per ICH guidelines. The chromatography was carried on AgilentC18 Column (100mm x 4.6mm; 2.5µm) with mobile phase containing. The methanol: 0.1%OPA (60:40) v/v.The detection wavelength was 231nm &flow rate was 0.85 ml/min.

Keywords: Dapagliflozin, UHPLC, Tablet, validation
Additional file 1: of Effects of hydrophilic polymer-coated polysulfone membrane dialyzers on intradialytic hypotension in diabetic hemodialysis patients (ATHRITE BP Study): a pilot study
Creators: name: Tsuchida, Kenji
name: Hashimoto, Hirofumi
name: Kawahara, Kazuhiko
name: Ikuro Hayashi
name: Fukata, Yoshio
name: Munenori Kashiwagi
name: Yamashita, Akihiro
name: Mineshima, Michio
name: Tomo, Tadashi
name: Ikuto Masakane
name: Takemoto, Yoshiaki
name: Kawanishi, Hideki
name: Nagai, Kojiro
name: Minakuchi, Jun
Publisher: name: figshare
Year: 2017
Subjects: subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Developmental Biology
subject: Marine Biology
subject: Science Policy
subject: 60506 Virology

description: Dialyzers of NV group. (PDF 65Â kb)
Verbal memory
Creators: name: Raucher-Chéné, Delphine
name: Lavigne, Katie
name: Sauve, Genevieve
name: Thibaudeau, Elisabeth
Publisher: name: OSF
Year: 2023
Subjects: cognition
list learning
open-source
psychoJS
verbal memory

description: A memory test which involves learning a list of words over 3 trials. This task records speech from participants' microphones and assesses immediate and delayed verbal memory recall and delayed recognition.
Adsorption characteristics of chloramphenicol onto powdered activated carbon and its desorption performance by ultrasound
Creators: name: Zhang, Tingting
name: Yang, Yanling
name: Li, Xing
name: Jiang, Yifan
name: Fan, Xiaoyan
name: Du, Peng
name: Li, Hang
name: Wang, Nan
name: Zhou, Zhiwei
Publisher: name: Taylor & Francis
Year: 2019
Subjects: subject: Biochemistry
subject: Space Science
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Environmental Sciences not elsewhere classified
subject: Chemical Sciences not elsewhere classified
subject: Biological Sciences not elsewhere classified
subject: Inorganic Chemistry
subject: FOS: Chemical sciences

description: In this work, the adsorption characteristics, including adsorption kinetic, isotherm and thermodynamics of chloramphenicol (CAP) onto powdered activated carbon (PAC), were carried out, and the feasibility of using ultrasound to regenerate saturated PAC in aqueous solution was evaluated. The adsorption results demonstrated that the adsorption mechanism was a complex process including surface adsorption, external liquid membrane diffusion and intraparticle diffusion as well, and the adsorption process was endothermic and non-spontaneous. The optimal conditions for PAC regeneration were as follows: acoustic density of 0.36 W/mL, saturated carbon dosage of 1.0 g/L and pH value of 10.36. The analysis of thermogravimetric analysis (TGA), Fourier transform infrared spectrometry (FTIR), Brunauer–Emmett–Teller (BET) surface area, pore size distribution and scanning electron microscopy (SEM) of PAC samples revealed that ultrasound mainly acted on surface functionalities, meso-pores and macro-pores of PAC through hydroxyl radical oxidization, high-pressure shock waves and high-speed microjets due to cavitation effect. This study highlighted that ultrasound could be efficiently desorbing CAP from saturated PAC. Practical applications of this method for PAC regeneration with complex natural matrices under environmentally realistic conditions were conducted and the adsorption capacity of the regenerated PAC decreased.
Additional file 3: Figure S3. of Serum cytokine profiles predict survival benefits in patients with advanced hepatocellular carcinoma treated with sorafenib: a retrospective cohort study
Creators: name: Hayashi, Tomoyuki
name: Yamashita, Taro
name: Terashima, Takeshi
name: Suda, Tsuyoshi
name: Okada, Hikari
name: Asahina, Yoshiro
name: Hayashi, Takehiro
name: Hara, Yasumasa
name: Nio, Kouki
name: Sunagozaka, Hajime
name: Takatori, Hajime
name: Arai, Kuniaki
name: Sakai, Yoshio
name: Yamashita, Tatsuya
name: Eishiro Mizukoshi
name: Honda, Masao
name: Kaneko, Shuichi
Publisher: name: figshare
Year: 2017
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: Immunology
subject: FOS: Clinical medicine
subject: Developmental Biology
subject: Marine Biology
subject: Cancer
subject: Science Policy
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Kaplan-Meier survival analysis of HCC patients with low serum TGF-Îą (â ¤20 pg/mL), PDGF-BB (â ¤300 pg/mL), and CXCL9 (â ¤100 pg/mL). (PDF 117 kb)
The F1Fo-ATP synthase α subunit of Candida albicans induces inflammatory responses by controlling amino acid catabolism
Creators: name: Li, Shuixiu
name: Liu, Yuting
name: Weng, Luobei
name: Zhao, Yajing
name: Zhang, Yishan
name: Zhang, Zhanpeng
name: Yang, Yang
name: Chen, Qiaoxin
name: Liu, Xiaochong
name: Zhang, Hong
Publisher: name: Taylor & Francis
Year: 2023
Subjects: subject: Biophysics
subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Molecular Biology
subject: Physiology
subject: Pharmacology
subject: Chemical Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Marine Biology
subject: Plant Biology

description: Sepsis is a leading cause of fatality in invasive candidiasis. The magnitude of the inflammatory response is a determinant of sepsis outcomes, and inflammatory cytokine imbalances are central to the pathophysiological processes. We previously demonstrated that a Candida albicans F1Fo-ATP synthase α subunit deletion mutant was nonlethal to mice. Here, the potential effects of the F1Fo-ATP synthase α subunit on host inflammatory responses and the mechanism were studied. Compared with wild-type strain, the F1Fo-ATP synthase α subunit deletion mutant failed to induce inflammatory responses in Galleria mellonella and murine systemic candidiasis models and significantly decreased the mRNA levels of the proinflammatory cytokines IL-1β, IL-6 and increased those of the anti-inflammatory cytokine IL-4 in the kidney. During C. albicans-macrophage co-culture, the F1Fo-ATP synthase α subunit deletion mutant was trapped inside macrophages in yeast form, and its filamentation, a key factor in inducing inflammatory responses, was inhibited. In the macrophage-mimicking microenvironment, the F1Fo-ATP synthase α subunit deletion mutant blocked the cAMP/PKA pathway, the core filamentation-regulating pathway, because it failed to alkalinize environment by catabolizing amino acids, an important alternative carbon source inside macrophages. The mutant downregulated Put1 and Put2, two essential amino acid catabolic enzymes, possibly due to severely impaired oxidative phosphorylation. Our findings reveal that the C. albicans F1Fo-ATP synthase α subunit induces host inflammatory responses by controlling its own amino acid catabolism and it is significant to find drugs that inhibit F1Fo-ATP synthase α subunit activity to control the induction of host inflammatory responses.
Three-dimensional hydrodynamical models of wind and outburst-related accretion in symbiotic systems
Creators: name: de Val-Borro, M.
name: Karovska, M.
name: Sasselov, D. D.
name: Stone, J. M.
Publisher: name: arXiv
Year: 2017
Subjects: subject: Solar and Stellar Astrophysics (astro-ph.SR)
subject: FOS: Physical sciences

description: Gravitationally focused wind accretion in binary systems consisting of an evolved star with a gaseous envelope and a compact accreting companion is a possible mechanism to explain mass transfer in symbiotic binaries. We study the mass accretion around the secondary caused by the strong wind from the primary late-type component using global three-dimensional hydrodynamic numerical simulations during quiescence and outburst stages. In particular, the dependence of the mass accretion rate on the mass-loss rate, wind parameters and phases of wind outburst development is considered. For a typical wind from an asymptotic giant branch star with a mass-loss rate of 1e-6 Msun/year and wind speeds of 20-50 km/s, the mass transfer through a focused wind results in efficient infall on to the secondary. Accretion rates onto the secondary of 5-20 per cent of the mass-loss from the primary are obtained during quiescence and outburst periods where the wind velocity and mass-loss rates are varied, about 20-50 per cent larger than in the standard Bondi-Hoyle-Lyttleton approximation. This mechanism could be an important method for explaining observed accretion luminosities and periodic modulations in the accretion rates for a broad range of interacting binary systems.
description: 11 pages, 8 figures, to be published in MNRAS