cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Anti-adenoviral Artificial MicroRNAs Expressed from AAV9 Vectors Inhibit Human Adenovirus Infection in Immunosuppressed Syrian Hamsters
Creators: name: Schaar, Katrin
name: Geisler, Anja
name: Kraus, Milena
name: Pinkert, Sandra
name: Pryshliak, Markian
name: Spencer, Jacqueline F.
name: Tollefson, Ann E.
name: Ying, Baoling
name: Kurreck, Jens
name: Wold, William S.
name: Klopfleisch, Robert
name: Toth, Karoly
name: Fechner, Henry
Publisher: name: Freie Universität Berlin
Year: 2017
Subjects: subject: adenovirus infection
subject: RNA interference
subject: antiviral therapy
subject: AAV vector
subject: 500 Naturwissenschaften und Mathematik::570 Biowissenschaften; Biologie

description: Infections of immunocompromised patients with human adenoviruses (hAd) can develop into life-threatening conditions, whereas drugs with anti-adenoviral efficiency are not clinically approved and have limited efficacy. Small double-stranded RNAs that induce RNAi represent a new class of promising anti- adenoviral therapeutics. However, as yet, their efficiency to treat hAd5 infections has only been investigated in vitro. In this study, we analyzed artificial microRNAs (amiRs) delivered by self-complementary adeno-associated virus (scAAV) vectors for treatment of hAd5 infections in immunosuppressed Syrian hamsters. In vitro evaluation of amiRs targeting the E1A, pTP, IVa2, and hexon genes of hAd5 revealed that two scAAV vectors containing three copies of amiR-pTP and three copies of amiR-E1A, or six copies of amiR-pTP, efficiently inhibited hAd5 replication and improved the viability of hAd5-infected cells. Prophylactic application of amiR-pTP/amiR-E1A- and amiR- pTP-expressing scAAV9 vectors, respectively, to immunosuppressed Syrian hamsters resulted in the reduction of hAd5 levels in the liver of up to two orders of magnitude and in reduction of liver damage. Concomitant application of the vectors also resulted in a decrease of hepatic hAd5 infection. No side effects were observed. These data demonstrate anti-adenoviral RNAi as a promising new approach to combat hAd5 infection.
Jarnellius Reinert, Harbach, gen.
Creators: name: Reinert, John F.
name: Harbach, Ralph E.
name: Kitching, Ian J.
Publisher: name: Zenodo
Year: 2006
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Diptera
Culicidae
Jarnellius

description: Jarnellius Reinert, Harbach & Kitching, gen.
 nov.
  Subgenus Jarnellius deserticola (Zavortink, 1969), comb. nov. laguna (Arnell & Nielsen, 1972), comb. nov. monticola (Belkin & McDonald, 1957), comb. nov. sierrensis (Ludlow, 1905), comb. nov. varipalpus (Coquillett, 1902), comb. nov.
  Subgenus Lewnielsenius Reinert, Harbach &
  Kitching, subgen. nov. muelleri (Dyar, 1920), comb. nov.
description: Published as part of Reinert, John F., Harbach, Ralph E. & Kitching, Ian J., 2006, Phylogeny and classification of Finlaya and allied taxa (Diptera: Culicidae: Aedini) based on morphological data from all life stages, pp. 1-101 in Zoological Journal of the Linnean Society 148 (1) on page 92, DOI: 10.1111/j.1096-3642.2006.00254.x, http://zenodo.org/record/5427743
MOESM2 of Transmission risk beyond the village: entomological and human factors contributing to residual malaria transmission in an area approaching malaria elimination on the Thailandâ Myanmar border
Creators: name: Edwards, Hannah
name: Patchara Sriwichai
name: Kirakorn Kirabittir
name: Jetsumon Prachumsri
name: Chavez, Irwin
name: Hii, Jeffrey
Publisher: name: figshare
Year: 2019
Subjects: subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: FOS: Biological sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Computational Biology

description: Additional file 2: Table S2. Utilization of bed nets the previous night by demographic factor among the surveyed adult population.
Lyman alpha line formation in starbursting galaxies II. Extremely Thick, Dustless, and Static HI Media
Creators: name: Ahn, Sang-Hyeon
name: Lee, Hee-Won
name: Lee, Hyung Mok
Publisher: name: arXiv
Year: 2001
Subjects: subject: Astrophysics (astro-ph)
subject: FOS: Physical sciences

description: The Lya line transfer in an extremely thick medium of neutral hydrogen is investigated by adopting an accelerating scheme in our Monte Carlo code to skip a large number of core or resonant scatterings. This scheme reduces computing time significantly with no sacrifice in the accuracy of the results. We applied this numerical method to the Lya transfer in a static, uniform, dustless, and plane-parallel medium. Two types of photon sources have been considered, the midplane source and the uniformly distributed sources. The emergent profiles show double peaks and absorption trough at the line-center. We compared our results with the analytic solutions derived by previous researchers, and confirmed that both solutions are in good agreement with each other. We investigated the directionality of the emergent Lya photons and found that limb brightening is observed in slightly thick media while limb darkening appears in extremely thick media. The behavior of the directionality is noted to follow that of the Thomson scattered radiation in electron clouds, because both Lya wing scattering and Thomson scattering share the same Rayleigh scattering phase function. The mean number of wing scatterings just before escape is in exact agreement with the prediction of the diffusion approximation. The Lya photons constituting the inner part of the emergent profiles follow the relationship derived from the diffusion approximation. We present a brief discussion on the application of our results to the formation of Lya broad absorption troughs and P-Cygni type Lya profiles seen in the UV spectra of starburst galaxies.
description: 24 papges, 12 figures, The revised version submitted to ApJ
MOESM1 of A technique for approximating transition rates from published survival analyses
Creators: name: Markian Pahuta
name: Werier, Joel
name: Wai, Eugene
name: Patchell, Roy
name: Coyle, Doug
Publisher: name: figshare
Year: 2019
Subjects: subject: Medicine
subject: Ecology
subject: FOS: Biological sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Marine Biology
subject: Science Policy
subject: Computational Biology

description: Additional file 1: Appendix A. Transition parameters for an illness-death model. Appendix B. Multistate estimation of transition rates.
The Effect of Radiative Cooling on the Sunyaev-Zel'dovich Cluster Counts and Angular Power Spectrum: Analytic Treatment
Creators: name: Zhang, Yu-Ying
name: Wu, Xiang-Ping
Publisher: name: arXiv
Year: 2002
Subjects: subject: Astrophysics (astro-ph)
subject: FOS: Physical sciences

description: Recently, the entropy excess detected in the central cores of groups and clusters has been successfully interpreted as being due to radiative cooling of the hot intragroup/intracluster gas. In such a scenario, the entropy floors $S_{\rm floor}$ in groups/clusters at any given redshift are completely determined by the conservation of energy. In combination with the equation of hydrostatic equilibrium and the universal density profile for dark matter, this allows us to derive the remaining gas distribution of groups and clusters after the cooled material is removed. Together with the Press-Schechter mass function we are able to evaluate effectively how radiative cooling can modify the predictions of SZ cluster counts and power spectrum. It appears that our analytic results are in good agreement with those found by hydrodynamical simulations. Namely, cooling leads to a moderate decrease of the predicted SZ cluster counts and power spectrum as compared with standard scenario. However, without taking into account energy feedback from star formation which may greatly suppress cooling efficiency, it is still premature to claim that this modification is significant for the cosmological applications of cluster SZ effect.
description: 16 pages, 3 figures, uses aastex.cls. ApJ accepted
Dual-Component Plasma Lens Models
Creators: name: Rogers, Adam
name: Er, Xinzhong
Publisher: name: arXiv
Year: 2019
Subjects: subject: Astrophysics of Galaxies (astro-ph.GA)
subject: FOS: Physical sciences

description: In contrast to the converging, achromatic behaviour of axisymmetric gravitational lenses, diverging frequency-dependent lensing occurs from refraction due to a distribution of over-dense axisymmetric plasma along an observer's line of sight. Such plasma lenses are particularly interesting from the point of view of astronomical observations because they can both magnify and dim the appearance of background sources as a function of frequency. Plasma lensing is believed to be involved in a number of separate phenomena involving the scintillation of radio pulsars, extreme scattering events of background radio sources and may also play a role in the generation of fast radio bursts. These lensing phenomena are believed to occur in dense environments, in which there may be many density perturbations between an observer and background source. In this work we generalize individual plasma lens models to produce dual component lenses using families of plasma lens models previously studied in the literature, namely the exponential and softened power-law lenses. Similar to binary gravitational lens models, these dual component plasma lenses feature a rich and complex critical and caustic morphology, as well as generate more complicated light curves. We map the number of criticals formed for a given component separation and angular size, and highlight a relevant degeneracy between two particular models. This work provides an argument in favor of close monitoring of extreme scattering events in progress in order to break such model degeneracies.
description: 19 pages, 20 figures, accepted for publication in MNRAS. Comments welcome!
MOESM3 of Circular RNA circERBB2 promotes gallbladder cancer progression by regulating PA2G4-dependent rDNA transcription
Creators: name: Huang, Xince
name: He, Ming
name: Huang, Shuai
name: Lin, Ruirong
name: Zhan, Ming
name: Yang, Dong
name: Shen, Hui
name: Xu, Sunwang
name: Cheng, Wei
name: Yu, Jianxiu
name: Qiu, Zilong
name: Wang, Jian
Publisher: name: figshare
Year: 2019
Subjects: subject: Biophysics
subject: Biochemistry
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Ecology
subject: Biological Sciences not elsewhere classified
subject: Developmental Biology

description: Additional file 3: Figure S2. Screen for functional circRNAs in GBC tissues. a PCR validation of 12 circRNAs with divergent primers. cDNA or gDNA from SGC-996 cells were used as template. Arrows showed bands detected with back-splicing sequence by DNA sequencing. b Relative abundance of the 8 circRNAs increased significantly after treatment of RNase R (n = 3). Quantitative data from three independent experiments was presented as mean ± SD (error bars). P-values were determined by paired, two-tailed two sample t-test. *: p < 0.05.
Origin of quasi-periodic shells in dust forming AGB winds
Creators: name: Simis, Yvonne
name: Icke, Vincent
name: Dominik, Carsten
Publisher: name: arXiv
Year: 2001
Subjects: subject: Astrophysics (astro-ph)
subject: FOS: Physical sciences

description: We have combined time dependent hydrodynamics with a two-fluid model for dust driven AGB winds. Our calculations include self-consistent gas chemistry, grain formation and growth, and a new implementation of the viscous momentum transfer between grains and gas. This allows us to perform calculations in which no assumptions about the completeness of momentum coupling are made. We derive new expressions to treat time dependent and non-equilibrium drift in a hydro code. Using a stationary state calculation for IRC +10216 as initial model, the time dependent integration leads to a quasi-periodic mass loss in the case where dust drift is taken into account. The time scale of the variation is of the order of a few hundred years, which corresponds to the time scale needed to explain the shell structure of the envelope of IRC +10216 and other AGB and post-AGB stars, which has been a puzzle since its discovery. No such periodicity is observed in comparison models without drift between dust and gas.
description: 17 pages, 9 figures, accepted by A&A
Additional file 1 of Associations between over-the-counter analgesics usage and symptoms of anxiety and depression in adolescents: a network analysis
Creators: name: Roalsø, Elise Solbu
name: Klonteig, Sandra
name: Kraft, Brage
name: Skarstein, Siv
name: Aalberg, Marianne
name: Jonassen, Rune
Publisher: name: figshare
Year: 2024
Subjects: Neuroscience
Biotechnology
Biological Sciences not elsewhere classified
Cancer
Science Policy
Mental Health

description: Supplementary Material 1.
title: Structural Insights into Glycan Interactions of Human Pathogens
Creators: name: Bohm, Raphael
Publisher: name: Griffith University
Year: 2014
Subjects: subject: Glycans
subject: Human pathogens
subject: Glycan biosynthesis (glycosyltransferases)
subject: Glycan recognition (lectins)
subject: Glycan degradation (glycosylhydrolases)

description: Glycans are major components of every cell surface. In addition to their importance in many physiological processes, glycans play a key role during infection of many pathogens. The identification and characterisation of glycan-pathogen interactions at a molecular and atomic level is therefore a crucial step towards the design of novel antimicrobial drugs and vaccines. Protein functions related to glycan interactions include glycan biosynthesis (glycosyltransferases), glycan recognition (lectins) and glycan degradation (glycosylhydrolases). This thesis investigates structure-function relationships of four glycan binding proteins that are important for the infectivity of three major human pathogens: the polysialyltransferase (polyST) of Neisseria meningitidis serogroup B (NmB), the viral protein 8* (VP8*) of rotavirus, and the hemagglutinin (HA) and the neuraminidase (NA) of influenza A virus (IAV).
Funktionelle und zytotoxische Untersuchungen zur Wirkung von Extrakten aus Laubblättern von Hippophae rhamnoides auf Estrogenrezeptor-positive und -negative Mammakarzinomzellen und humane benigne Mammazellen
Creators: name: Kunert, Anna-Maria
Publisher: name: Universität Rostock
Year: 2020
Subjects: subject: 610 Medical sciences Medicine

description: Es wurden Untersuchungen von Sanddornblattextrakten auf Brustkrebszellen durchgeführt. Lipophile Sanddornblattextrakte sind hydrophilen bei benignen Mammazellen bei der Proliferationshemmung überlegen. Ein karzinogenes Potential ist bei den benignen Mammazellen wenig wahrscheinlich. Bei den malignen Zellen ist wegen der inkonsistenten Ergebnisse keine Aussage möglich. Der Hormonrezeptorstatus (ERa, ERß, PR) scheint bei der Proliferationshemmung eine unwesentliche Rolle zu spielen. Weitere Untersuchungen des Luyengi-Extraktes auf maligne Mammazellen mit geeigneteren Methoden sollten folgen.
MOESM1 of Transmission risk beyond the village: entomological and human factors contributing to residual malaria transmission in an area approaching malaria elimination on the Thailandâ Myanmar border
Creators: name: Edwards, Hannah
name: Patchara Sriwichai
name: Kirakorn Kirabittir
name: Jetsumon Prachumsri
name: Chavez, Irwin
name: Hii, Jeffrey
Publisher: name: figshare
Year: 2019
Subjects: subject: Medicine
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: Science Policy
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Computational Biology

description: Additional file 1: Table S1. Demographics of the surveyed adult (aged 18Â years and over) population in the three study villages of Tha Song Yang district.
Metro-Haul: Towards a High Bandwidth, 5G application-aware optical network
Creators: name: King, Daniel
Publisher: name: Zenodo
Year: 2017
Subjects: optical SDN

description: The European Commission funded Metro-Haul project is to architect and design cost-effective, energy-efficient, agile, and programmable metro networks that are scalable for 5G access supporting next generation Internet services, while capable of responding to real-time application demands.

 This work will encompass the design of flexible all-optical metro nodes that will include full compute and storage capabilities that will interface with both 5G access and multi-Tbit/s core networks capable of elastic dimensioning. The presentation outlines these Metro-Haul research partners and activities, it provides uses cases, architecture view, and areas for commercial exploitation and dissemination.
Babakina Roller 1973
Creators: name: Gosliner, Terrence M.
name: González-Duarte, Manuel M.
name: Cervera, Juan Lucas
Publisher: name: Zenodo
Year: 2007
Subjects: Biodiversity
Taxonomy
Animalia
Mollusca
Gastropoda
Nudibranchia
Babakinidae
Babakina

description: BABAKINA ROLLER, 1973
 Type species: Babaina festiva Roller, 1972: 416, figures 1–9.
 Diagnosis: Pleuroproctic Aeolidina, with the cerata arranged in numerous rows along both sides of the body, not in separate groups. Notal brim well developed. Foot corners tentaculiform. Uniseriate radula with triangular rachidian tooth. Rachidian tooth with lateral denticles on either side of the central cusp. Rhinophores sharing a common base. Masticatory border of jaws with 3–4 rows of denticles.
Reproductive system with a diaulic arrangement. Penis unarmed, without penial glands. Prostate uniform, with a proximal receptaculum seminis and a distal bursa copulatrix.
description: Published as part of Gosliner, Terrence M., González-Duarte, Manuel M. & Cervera, Juan Lucas, 2007, Revision of the systematics of Babakina Roller, 1973 (Mollusca: Opisthobranchia) with the description of a new species and a phylogenetic analysis, pp. 671-689 in Zoological Journal of the Linnean Society 151 (4) on page 672, DOI: 10.1111/j.1096-3642.2007.00331.x, http://zenodo.org/record/10114578
A systematic procedure to build the beyond generalized Proca field theory
Creators: name: Cadavid, Alexander Gallego
name: Rodriguez, Yeinzon
Publisher: name: arXiv
Year: 2019
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: Cosmology and Nongalactic Astrophysics (astro-ph.CO)
subject: General Relativity and Quantum Cosmology (gr-qc)
subject: FOS: Physical sciences

description: To date, different alternative theories of gravity, although related, involving Proca fields have been proposed. Unfortunately, the procedure to obtain the relevant terms in some formulations has not been systematic enough or exhaustive, thus resulting in some missing terms or ambiguity in the process carried out. In this paper, we propose a systematic procedure to build the beyond generalized theory for a Proca field in four dimensions containing only the field itself and its first-order derivatives. We examine the validity of our procedure at the fourth level of the generalized Proca theory. In our approach, we employ all the possible Lorentz-invariant Lagrangian pieces made of the Proca field and its first-order derivatives, including those that violate parity, and find the relevant combination that propagates only three degrees of freedom and has healthy dynamics for the longitudinal mode. The key step in our procedure is to retain the flat space-time divergences of the currents in the theory during the covariantization process. In the curved space-time theory, some of the retained terms are no longer current divergences so that they induce the new terms that identify the beyond generalized Proca field theory. The procedure constitutes a systematic method to build general theories for multiple vector fields with or without internal symmetries.
description: LaTeX file in RevTeX 4.1 style, 13 pages in single column, no figures. v2: some minor corrections and references added. Version accepted for publication in Physics Letters B. v3: published version
Additional file 1 of Beneficial impact of epigallocatechingallate on LDL-C through PCSK9/LDLR pathway by blocking HNF1α and activating FoxO3a
Creators: name: Cui, Chuan-Jue
name: Jin, Jing-Lu
name: Guo, Lin-Na
name: Sun, Jing
name: Wu, Na-Qiong
name: Guo, Yuan-Lin
name: Liu, Geng
name: Dong, Qian
name: Li, Jian-Jun
Publisher: name: figshare
Year: 2020
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Chemical Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Virology
subject: Computational Biology

description: Additional file 1: Figure S1. The effects of EGCG on circulating PCSK9 level in dose-dependent manner in rats. SD rats fed with HFD for 4 weeks and administered with EGCG by i.g. at different doses for another 4 weeks. The levels of plasma PCSK9 were analyzed by ELISA kit. **p <0.01, vs control, #p <0.05, ##p <0.01, versus HFD group (N=3). Figure S2. EGCG modulates LDLR and LDL uptake through PCSK9-dependent pathway by regulating HNF1α and FoxO3a in hepatic cells. (A) Cells were added rhPCSK9 or transfected with siRNA negative control (si-Control) or stealth siRNA for the knockdown of PCSK9 (si-PCSK9). The levels of PCSK9 and LDLR were determined by western blot, GAPDH was used as the loading control. (B) The nuclear extracts from with or without EGCG (25 μM) –treated Huh7 cells. The effects of EGCG on the nuclear HNF1α and FoxO3a expression by western blot analysis, the normalized intensity of nuclear HNF1α and FoxO3a protein, HDAC2 was used as the loading control. (C) Cells were transfected with siRNA negative control (si-Control) or stealth siRNA for the knockdown of HNF1α, the level of PCSK9 and LDLR were determined by western blot, GAPDH was used as the loading control. (D) Cells were transfected with siRNA negative control (si-Control) or stealth siRNA for the knockdown of FoxO3a, the level of PCSK9 and LDLR were determined by western blot, GAPDH was used as the loading control. (E) Representative fluorescence microscopy images of cell‐associated Dil-LDL (red), Hoechst‐stained nuclei (blue) and the overlay (upper). Fluorescence of isopropanol‐extracted Dil (520-570 nm, normalized to the cell protein) (lower). Data are presented as mean±SEM (N=3). **p <0.01 compared with control. ##p <0.01 compared with EGCG group. Figure S3. Flow charts of the experiment. We studied the effects and underlying molecular mechanism of EGCG or green tea on regulating cholesterol from human, animal and in vitro, this chart shows the whole experiment process. Table S1. Baseline characters of study population. Table S2. Univariate and multivariate linear regression analyses for the relationship of PCSK9 and tea consumption.
Institutional Dimension of Constitutional Pluralism
Creators: name: Komárek, Jan
Publisher: name: Zenodo
Year: 2010

description: Constitutional pluralism, through its contestation of finality and conclusiveness, highlights the role of particular institutions which take decisions of constitutional significance. This paper argues that this institutional dimension is one of constitutional pluralism’s principal virtues. Most theories of European constitutionalism do not recognize this and leave important questions unexplored. Those that do so focus too much on conflict and choice. The paper proposes the reorientation of institutional analysis toward communication and involvement.
Multiwavelength Monitoring of the Narrow-Line Seyfert 1 Galaxy Akn 564. II. Ultraviolet Continuum and Emission-line Variability
Creators: name: Collier, S.
name: Crenshaw, D. M.
name: Peterson, B. M.
name: Brandt, W. N.
name: Clavel, J.
name: Edelson, R.
name: George, I. M.
name: Horne, K.
name: Kriss, G. A.
name: Mathur, S.
name: Netzer, H.
name: O'Brien, P. T.
name: Pogge, R. W.
name: Pounds, K. A.
name: Romano, P.
name: Shemmer, O.
name: Turner, T. J.
name: Wamsteker, W.
Publisher: name: arXiv
Year: 2001
Subjects: subject: Astrophysics (astro-ph)
subject: FOS: Physical sciences

description: We present results of an intensive two-month campaign of approximately daily spectrophotometric monitoring of the narrow-line Seyfert 1 galaxy Akn 564 with HST. The fractional variability amplitude of the continuum variations between 1365-3000 A is ~6%, about a factor 3 less than that found in typical Seyfert 1 galaxies over a similar period of time. However, large amplitude, short time-scale flaring behavior is evident, with trough-to-peak flux changes of about 18% in approximately 3 days. We present evidence for wavelength-dependent continuum time delays, with the variations at 3000 A lagging behind those at 1365 A by about 1 day. These delays may be interpreted as evidence for a stratified continuum reprocessing region, possibly an accretion-disk structure. The Lyman-alpha 1216 emission-line exhibits flux variations of about 1% amplitude.
description: 27 pages, 14 figures. Accepted by Astrophysical Journal
Symmetry-adapted real-space density functional theory for cylindrical geometries: application to large X (X=C, Si, Ge, Sn) nanotubes
Creators: name: Ghosh, Swarnava
name: Banerjee, Amartya S.
name: Suryanarayana, Phanish
Publisher: name: arXiv
Year: 2019
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: We present a symmetry-adapted real-space formulation of Kohn-Sham density functional theory for cylindrical geometries and apply it to the study of large X (X=C, Si, Ge, Sn) nanotubes. Specifically, starting from the Kohn-Sham equations posed on all of space, we reduce the problem to the fundamental domain by incorporating cyclic and periodic symmetries present in the angular and axial directions of the cylinder, respectively. We develop a high-order finite-difference parallel implementation of this formulation, and verify its accuracy against established planewave and real-space codes. Using this implementation, we study the band structure and bending properties of X nanotubes and Xene sheets, respectively. Specifically, we first show that zigzag and armchair X nanotubes with radii in the range 1 to 5 nm are semiconducting. In particular, we find an inverse linear dependence of the bandgap with respect to the radius for all nanotubes, other than the armchair and zigzag type III carbon variants, for which we find an inverse quadratic dependence. Next, we exploit the connection between cyclic symmetry and uniform bending deformations to calculate the bending moduli of Xene sheets in both zigzag and armchair directions. We find Kirchhoff-Love type bending behavior for all sheets, with graphene and stanene possessing the largest and smallest moduli, respectively. In addition, other than graphene, the sheets demonstrate significant anisotropy, with larger bending moduli along the armchair direction. Finally, we demonstrate that the proposed approach has very good parallel scaling and is highly efficient, enabling ab initio simulations of unprecedented size for systems with a high degree of cyclic symmetry. In particular, we show that even micron-sized nanotubes can be simulated with modest computational effort.
description: 24 pages, 8 figures, 4 tables
Additional file 1: of A viral genome wide association study and genotypic resistance testing in patients failing first line antiretroviral therapy in the first large countrywide Ethiopian HIV cohort
Creators: name: Nigus Telele
name: Amare Kalu
name: Gebre-Selassie, Solomon
name: Fekade, Daniel
name: Marrone, Gaetano
name: Grossmann, Sebastian
name: Ujjwal Neogi
name: Belete Tegbaru
name: Sรถnnerborg, Anders
Publisher: name: figshare
Year: 2019
Subjects: subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Pharmacology
subject: Biotechnology
subject: Cancer
subject: Hematology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: 60506 Virology

description: Table S1. Drug resistance mutations (DRM) associated with reverse transcriptase inhibitors in patients failing at month 6 and/or 12 by the population-based Sanger sequencing (PBSS) assay. (DOCX 18 kb)
Mylilus edulis
Creators: name: Tëmkin, Ilya
Publisher: name: Zenodo
Year: 2006
Subjects: Biodiversity
Taxonomy
Animalia
Mollusca
Bivalvia
Mytilida
Mytilidae
Mylilus
Mylilus edulis

description: MYLILUS EDULIS (LINNAEUS, 1758)
West Atlantic, Eastern Point, Nahant, Essex County, Massachusetts, USA, in pool tides, in rocks at low tide (approximately 30 pairs with tissue; AMNH 3399 -A); East Atlantic, near Tarbet Ness, Rossshire, Scotland, on rocks in tidal pools, 0.1 m (three pairs with tissue; AMNH 179590).
Principal references: Purdie (1887) (gross anatomy); Field (1923) (detailed anatomy and shell morphology).
description: Published as part of Tëmkin, Ilya, 2006, Morphological perspective on the classification and evolution of Recent Pterioidea (Mollusca: Bivalvia), pp. 253-312 in Zoological Journal of the Linnean Society 148 (3) on page 311, DOI: 10.1111/j.1096-3642.2006.00257.x, http://zenodo.org/record/5427755
Opisthypselus Reuter 1909
Creators: name: Carpintero, Diego Leonardo
name: Dellapé, Pablo Matías
Publisher: name: Zenodo
Year: 2012
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hemiptera
Anthocoridae
Opisthypselus

description: Opisthypselus Reuter, 1909, restored placement
(Figs. 6, 23)
 Opisthypselus Reuter, 1909: 5. Type species: Opisthypsellus punctaticollis Reuter, 1909.
 Diagnostic characters. Elongate, ant-mimetic species. Shiny dorsally, with sparse long hairs. Head long; portion before eyes curved downward; eyes rounded, projecting, well separated from anterior margin of pronotum; antennae slender and long; segment II slightly widened toward its apex. Pronotum subtriangular, smooth; pronotal collar wide; anterior margin narrower than base of head; lateral and basal margins straight; posterior lobe with some strong punctures; both lobes separated by a row of punctures; scutellum slightly elevated. Hemelytra with lateral sides sinuated and with strong punctures as in pronotum; cuneal fracture long, reaching corial-claval suture. Legs slender and very long; unarmed; pseudo-pads at apex on fore and mid tibiae consisting of short membranous prominence bearing long hairs. Abdomen very constricted basally. Uradenia typical. Dorsal half of metapleura smooth; ostiolar peritreme (Fig. 23), placed basally in metapleura, short, wide, straight, inclined backward and rounded apically; median sulcus reaching only the basal quarter of peritreme.
 Studied material. Opisthypselus punctaticollis Reuter, 1908: BRAZIL: Río de Janeiro, Tijuca, 10/ VI /1963, 1 J (slide mounted), San Martín lgt. (MACN). NICARAGUA: Zelaya: C Saslaya, IV- 1996, 4 ♀♀, Maës – Hernandez lgt. (MACN).
 Remarks. This is the most modified genus of Scolopini. The ostiolar peritreme is probably the most characteristic of all Anthocoridae. CARPINTERO (2002) transferred this genus to Lasiochilinae based on the shape of ostiolar peritreme, straight with dorsal half of metapleura smooth. However, here we restore its position according to CARAYON (1972). The male genitalia have never been described; unfortunately, the single male we studied had lost the pygophore, and we could not study genital structures but we could see the typical uradenia of the Scolopini.
description: Published as part of Carpintero, Diego Leonardo & Dellapé, Pablo Matías, 2012, Neotropical Scolopini (Hemiptera: Heteroptera: Anthocoridae): new taxa, diagnostic characters and a key to the genera of the tribe, pp. 49-66 in Acta Entomologica Musei Nationalis Pragae 52 (1) on page 61, DOI: 10.5281/zenodo.5330417
R code and output for 'How to use statistics to claim antagonism and synergism from binary mixture experiments'
Creators: name: Ritz, Christian
Publisher: name: Zenodo
Year: 2021
Subjects: dose addition
dose-response analysis
factorial design
fixed-ratio design
independent action

description: R code and output for the analysis of two publicly available datasets obtained from binary mixture experiments. Specifically, it is shown how to analyze data from a single-dose factorial design and from a fixed-ratio design using analysis of variance and dose-response analysis. respectively. This is a revised version where IA results for Data example 1 are changed slightly compared to the two previous versions.
Additional file 1: of Fimasartan versus perindopril with and without diuretics in the treatment of elderly patients with essential hypertension (Fimasartan in the Senior Subjects (FITNESS)): study protocol for a randomized controlled trial
Creators: name: Min-Gu Kang
name: Kim, Kwang-Il
name: Ihm, Sang
name: Moo-Yong Rhee
name: Sohn, Il
name: Hae-Young Lee
name: Sungha Park
name: Eun-Seok Jeon
name: Song, Jong-Min
name: Pyun, Wook
name: Ki-Chul Sung
name: Kim, Moo
name: Sang-Hyun Kim
name: Seok-Yeon Kim
name: Shin-Jae Kim
name: Kim, Eung
name: Jinho Shin
name: Lee, Sung Yun
name: Kook-Jin Chun
name: Jeong, Jin-Ok
name: Shung Chae
name: Yoo, Ki
name: Choi, Young
name: Park, Yong
name: Cheol-Ho Kim
Publisher: name: figshare
Year: 2019
Subjects: subject: Medicine
subject: Cancer
subject: Science Policy
subject: 111714 Mental Health
subject: FOS: Health sciences

description: SPIRIT 2013 checklist: Recommended items to address in a clinical trial protocol and related documents. (DOC 124 kb)
Plasmonic lenses for tunable ultrafast electron emitters at the nanoscale
Creators: name: Durham, Daniel B.
name: Riminucci, Fabrizio
name: Ciabattini, Filippo
name: Mostacci, Andrea
name: Minor, Andrew M.
name: Cabrini, Stefano
name: Filippetto, Daniele
Publisher: name: arXiv
Year: 2019
Subjects: subject: Applied Physics (physics.app-ph)
subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: Optics (physics.optics)
subject: FOS: Physical sciences

description: Simultaneous spatio-temporal confinement of energetic electron pulses to femtosecond and nanometer scales is a topic of great interest in the scientific community, given the potential impact of such development on a wide spectrum of scientific and industrial applications. For example, in ultrafast electron scattering, nanoscale probes would enable accurate maps of structural dynamics in materials with nanoscale heterogeneity, thereby understanding the role of boundaries and defects on macroscopic properties. On the other hand, advances in this field are mostly limited by the electron source brightness and size. We present the design, fabrication, and optical characterization of bullseye plasmonic lenses for next-generation ultrafast electron sources. Using electromagnetic simulations, we examine how the interplay between light-plasmon coupling, plasmon propagation, dispersion, and resonance governs the properties of the photoemitted electron pulse. We also illustrate how the pulse duration and strength can be tuned by geometric design, and predict sub-10 fs pulses with nanoscale diameter can be achieved. We then fabricated lenses in gold films and characterized their plasmonic properties with cathodoluminescence spectromicroscopy, demonstrating suitable plasmonic behavior for ultrafast, nanoscale photoemission.
title: OCTOGRAPH: A Methodology for Returning the Industrial Plant to the Desired Operating Point
Creators: name: Duffy, Gerrad
Publisher: name: Griffith University
Year: 2018
Subjects: subject: Octograph
subject: Industrial plant
subject: Processing plant
subject: Harris Index
subject: Plant performance

description: The performance of a processing plant can be measured in many ways, whether it be production throughput, product quality within contract specifications or cost per tonne margins which may extend to process energy consumption (electrical or steam), equipment maintenance or failure or resourcing costs. A processing plant can be a complex process with multiple control schemes ranging from simple control to advanced control such as supervisory schemes, incorporating estimation and optimization techniques. Each processing plant operates to specific process objectives often represented by a target operating point. Often, after some years of plant operation the operating point has drifted from the target. Before the processing plant is returned to the target operating point and its performance re-tuned, the performance of the control schemes must be understood and areas for improvement identified. This research proposes a methodology named OCTOGRAPH, that assesses the control scheme performance of the industrial plant, identifying control loops for improvement and control strategies to be implemented. The aim of the methodology is to improve the performance of the industrial plant, returning the operating point to the desired target. This thesis has developed an extension to the Harris Index capable of providing control practitioners with both, the paradigm and a practical tool to assess the current state of the control schemes within the industrial setting with no impact on production and no requirement for a priori knowledge of the control scheme or process dynamics. The developed performance assessment paradigm also provides guidance to improvement areas with a plant-wide process improvement focus. The results conclude that a mineral processing plant operating point does drift from the nominated operating set point. By firstly assessing the mineral processing plant with a closed loop control performance assessment technique with a focus on the plant-wide interactions, the plants control performance is calculated. The challenge then is to determine how to improve the performance of the plant to return the plant to the nominal operating point. The OCTOGRAPH methodology presented describes the interconnections between each of the process and manipulated variables in the form of a dead time relationship. By connecting the process variables in the shortest path, constructing a control strategy improves the plant performance.
MOESM4 of Circular RNA circERBB2 promotes gallbladder cancer progression by regulating PA2G4-dependent rDNA transcription
Creators: name: Huang, Xince
name: He, Ming
name: Huang, Shuai
name: Lin, Ruirong
name: Zhan, Ming
name: Yang, Dong
name: Shen, Hui
name: Xu, Sunwang
name: Cheng, Wei
name: Yu, Jianxiu
name: Qiu, Zilong
name: Wang, Jian
Publisher: name: figshare
Year: 2019
Subjects: subject: Biophysics
subject: Biochemistry
subject: Physical Sciences not elsewhere classified
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Chemical Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Cancer
subject: Hematology

description: Additional file 4: Figure S3. circERBB2 promotes growth of GBC cells in vitro. a qPCR showed that circERBB2, but not ERBB2 mRNA, was effectively silenced by two siRNAs targeting back-splicing sequence of circERBB2 (n = 3). b CCK8 assay showed that silencing of circERBB2 by siRNAs impaired proliferation of SGC-996 cells (n = 3). c CCK8 assay showed that silencing of circERBB2 by siRNAs impaired proliferation of GBC-SD cells (n = 3). d Silencing of circERBB2 by siRNAs impaired clone formation ability of GBC cells. e gDNA sequence of sgRNA-targeted region of SGC-996Alu−/− and GBC-SDAlu−/− cells. f Structure of pLenti-CMV-circERBB2 vector and relative abundance of circERBB2 in GBC cells with or without OE of circERBB2 (n = 3). Quantitative data from three independent experiments was presented as mean ± SD (error bars). P-values were determined by paired, two-tailed two sample t-test. *: p < 0.05; **:p < 0.01.
Lasiochiloides Champion 1900
Creators: name: Carpintero, Diego Leonardo
name: Dellapé, Pablo Matías
Publisher: name: Zenodo
Year: 2012
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hemiptera
Anthocoridae
Lasiochiloides

description: Lasiochiloides Champion, 1900
 Lasiochiloides Champion, 1900: 311. Type species: Lasiochiloides denticulatus Champion, 1900.
 Diagnostic characters. Body flattened dorso-ventrally. Head short, broader than long. Eyes small. Rostrum reaching middle of metasternum; antennal segments III and IV very slender. Hemelytra pilose, punctured: clavus with row of punctures on inner margin; corium and cuneus with sparse punctures. Fore and hind femora very enlarged. Fore femora with spines on inner margin. Fore tibiae with row of teeth on inner margin, with a small fossula spongiosa at apex. Ostiolar peritreme long and strongly curved forwards, apically rounded.
 Studied material. Lasiochiloides denticulatus Champion,1900: HOLOTYPE: J, GUATEMALA: ‘ Type, BCA Rhynch. II, Lasiochiloides denticulatus Ch. Cerro Zunil, 4-5000 ft Champ. sp. figured’ (BMNH).
 Remarks. This genus has an uncertain position within the Scolopina because of its densely pilose and punctured dorsum. The generic affinities with the Old World species must be revised.
description: Published as part of Carpintero, Diego Leonardo & Dellapé, Pablo Matías, 2012, Neotropical Scolopini (Hemiptera: Heteroptera: Anthocoridae): new taxa, diagnostic characters and a key to the genera of the tribe, pp. 49-66 in Acta Entomologica Musei Nationalis Pragae 52 (1) on page 63, DOI: 10.5281/zenodo.5330417
Thermal boundary conductance and phonon transmission in hexagonal boron nitride/graphene heterostructures
Creators: name: Brown, David B.
name: Bougher, Thomas L.
name: Zhang, Xiang
name: Ajayan, Pulickel
name: Cola, Baratunde A.
name: Kumar, Satish
Publisher: name: arXiv
Year: 2019
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: Increased power density in modern microelectronics has led to thermal management challenges which can cause degradation in performance and reliability. In many high-power electronic devices, the power consumption and heat removal are limited by the thermal boundary conductance (TBC) at the interfaces of dissimilar materials. Two-dimensional (2D) materials such as graphene and hexagonal boron nitride (h-BN) have attracted interest as a conductor/insulator pair in next-generation devices because of their unique physical properties; however, the thermal transport at the interfaces must be understood to accurately predict the performance of heterostructures composed of these materials. We use time-domain thermoreflectance (TDTR) to estimate the TBC at the interface of h-BN and graphene to be 35.1 MW/m2-K. We compare the phonon transmission and TBC at the h-BN/graphene interface predicted by two different formulations of the diffuse mismatch model (DMM) for anisotropic materials. The piecewise anisotropic DMM model, which uses two different phonon velocities near the center and at edge of the first Brillouin zone, results in better prediction of phonon transmission rates. The phonon transmission and temperature dependence of TBC confirms the flexural branch in ab-plane and c-plane longitudinal acoustic branch of graphene and h-BN are the dominant contributor when implementing both the A-DMM and PWA-DMM models. The methodology used here can be employed to heterostructures of other 2D materials.
Additional file 1 of Hypoxia-induced NOS1 as a therapeutic target in hypercholesterolemia-related colorectal cancer
Creators: name: Qiu, Weiqing
name: Zhao, Li
name: Liu, Hua
name: Xu, Ping
name: Qian, Changlin
Publisher: name: figshare
Year: 2024
Subjects: subject: Biophysics
subject: Biochemistry
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Pharmacology
subject: Chemical Sciences not elsewhere classified
subject: Biological Sciences not elsewhere classified
subject: Marine Biology
subject: Cancer
subject: Science Policy
subject: Computational Biology

description: Supplementary material 1.
Ellipticity analysis of the BOOMERanG CMB maps
Creators: name: Gurzadyan, V. G.
name: Ade, P. A. R.
name: de Bernardis, P.
name: Bianco, C. L.
name: Bock, J. J.
name: Boscaleri, A.
name: Crill, B. P.
name: De Troia, G.
name: Ganga, K.
name: Giacometti, M.
name: Hivon, E.
name: Hristov, V. V.
name: Kashin, A. L.
name: Lange, A. E.
name: Masi, S.
name: Mauskopf, P. D.
name: Montroy, T.
name: Natoli, P.
name: Netterfield, C. B.
name: Pascale, E.
name: Piacentini, F.
name: Polenta, G.
name: Ruhl, J.
Publisher: name: arXiv
Year: 2002
Subjects: subject: Astrophysics (astro-ph)
subject: FOS: Physical sciences

description: The properties of the Cosmic Microwave Background (CMB) maps carry valuable cosmological information. Here we report the results of the analysis hot and cold CMB anisotropy spots in the BOOMERanG 150 GHz map in terms of number, area, ellipticity, vs. temperature threshold. We carried out this analysis for the map obtained by summing independent measurement channels (signal plus noise map) and for a comparison map (noise only map) obtained by differencing the same channels. The anisotropy areas (spots) have been identified for both maps for various temperature thresholds and a catalog of the spots has been produced. The orientation (obliquity) of the spots is random for both maps. We computed the mean elongation of spots obtained from the maps at a given temperature threshold using a simple estimator. We found that for the sum map there is a region of temperature thresholds where the average elongation is not dependent on the threshold. Its value is ~ 2.3 for cold areas and ~ 2.2 for hot areas. This is a non-trivial result. The bias of the estimator is less than 0.4 for areas of size less than 30', and smaller for larger areas. The presence of noise also biases the ellipticity by less than 0.3. These biases have not been subtracted in the results quoted above. The threshold independent and random obliquity behaviour in the sum map is stable against pointing reconstruction accuracy and noise level of the data, thus confirming that these are actual properties of the dataset. The data used here give a hint of high ellipticity for the largest spots. Analogous elongation properties of CMB anisotropies had been detected for COBE-DMR 4-year data. If this is due to geodesics mixing, it would point to a non zero curvature of the Universe.
description: Addendums on the more detailed description of the algorithms and on the non zero curvature
Locally ordered topological spaces
Creators: name: Pikul, Piotr
Publisher: name: arXiv
Year: 2019
Subjects: subject: General Topology (math.GN)
subject: FOS: Mathematics
subject: Primary 54F05, Secondary 06F30, 54D10, 54E99

description: While topology given by a linear order has been extensively studied, this cannot be said about the case when the order is given only locally. The aim of this paper is to fill this gap. We consider relation between local orderability and separation axioms and give characterisation of all connected, locally connected or compact locally ordered Hausdorff spaces. A collection of interesting examples is also offered.
Stellar Contents and Globular Cluster Candidates in the Sculptor Group Galaxy NGC 300
Creators: name: Kim, Sang Chul
name: Sung, Hwankyung
name: Lee, Myung Gyoon
Publisher: name: arXiv
Year: 2002
Subjects: subject: Astrophysics (astro-ph)
subject: FOS: Physical sciences

description: We present UBVI CCD photometry of the stellar contents and globular cluster(GC) candidates in the spiral galaxy NGC 300 in the Sculptor group. Color-magnitude diagrams for 18 OB associations having more than 30 member stars are presented. The slope of the initial mass function for the bright stars in NGC 300 is estimated to be Gamma = -2.6 +/- 0.3. Assuming the distance to NGC 300 of (m-M)_0 = 26.53 +/- 0.07, the mean absolute magnitude of three brightest blue stars is obtained to be = -8.95 mag. We have performed search for GCs in NGC 300 and have found 17 GC candidates in this galaxy. Some characteristics of these GC candidates are discussed.
description: 24 pages(AASLaTeX), 14 Postscript figures, Accepted for publication in the Journal of the Korean Astronomical Society, 2002 March issue, Typos Corrected