cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Additional file 1: of An intergenerational program based on psycho-motor activity promotes well-being and interaction between preschool children and older adults: results of a process and outcome evaluation study in Austria
Creators: name: Mosor, Erika
name: Waldherr, Karin
name: Kjeken, Ingvild
name: Omara, Maisa
name: Ritschl, Valentin
name: Pinter-Theiss, Veronika
name: Smolen, Josef
name: HĂźbel, Ursula
name: Stamm, Tanja
Publisher: name: figshare
Year: 2019
Subjects: subject: Medicine
subject: Molecular Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Developmental Biology
subject: 60506 Virology
subject: Computational Biology

description: Overview about the content of the intervention program and the activity-inducing material used. (DOCX 14 kb)
Diagrammatic Coupled Cluster Monte Carlo
Creators: name: Scott, Charles J. C.
name: Di Remigio, Roberto
name: Crawford, T. Daniel
name: Thom, Alex J. W.
Publisher: name: arXiv
Year: 2019
Subjects: subject: Chemical Physics (physics.chem-ph)
subject: Computational Physics (physics.comp-ph)
subject: FOS: Physical sciences

description: We propose a modified coupled cluster Monte Carlo algorithm that stochastically samples connected terms within the truncated Baker--Campbell--Hausdorff expansion of the similarity transformed Hamiltonian by construction of coupled cluster diagrams on the fly. Our new approach -- diagCCMC -- allows propagation to be performed using only the connected components of the similarity-transformed Hamiltonian, greatly reducing the memory cost associated with the stochastic solution of the coupled cluster equations. We show that for perfectly local, noninteracting systems, diagCCMC is able to represent the coupled cluster wavefunction with a memory cost that scales linearly with system size. The favorable memory cost is observed with the only assumption of fixed stochastic granularity and is valid for arbitrary levels of coupled cluster theory. Significant reduction in memory cost is also shown to smoothly appear with dissociation of a finite chain of helium atoms. This approach is also shown not to break down in the presence of strong correlation through the example of a stretched nitrogen molecule. Our novel methodology moves the theoretical basis of coupled cluster Monte Carlo closer to deterministic approaches.
description: 31 pages, 6 figures
title: They Be Taggin, Don't They?: The Acquisition of Invariant Be
Creators: name: Jackson, Janice
name: Ramos, Eliane
name: Hall, Fred
name: Coles, D'Jaris
name: Seymour, Harry
name: Dickey, Mike
name: Broderick, Kimberly
name: Hollebrandse, Bart
Publisher: name: University of Massachusetts Amherst
Year: 1996

description: Jackson, J., Ramos, E., Hall, F., Coles, D. J., Seymour, H. N., Dickey, M., Broderick, K., & Hollebrandse, B. (1996). They be taggin', don't they? The acquisition of invariant Be. In A. Stringfellow, D. Cahana-Amitay, E. Hughes, & A. Zukowski (Eds.), Proceedings of the 20th Annual Boston University Conference on Language Development: Vol. 1 (pp. 364-373). Somerville, MA: Cascadilla Press.
description: Does African-American English (AAE) have a separate grammar from Standard American English (SAE)? AAE has a number of distinctive features, several of which have been discussed extensively in the sociolinguistic literature: the variable use of third-person singular -s; the absence of plura -s; the variable use of copula; and others. (See Labov, 1966, 1969a, b, and Fasold, 1972 for discussion.) Perhaps the most distinctive feature of AAE is habitual or invariant "be".
Superasymptotic and hyperasymptotic approximation to the operator product expansion
Creators: name: Ayala, Cesar
name: Lobregat, Xabier
name: Pineda, Antonio
Publisher: name: arXiv
Year: 2019
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: High Energy Physics - Lattice (hep-lat)
subject: High Energy Physics - Phenomenology (hep-ph)
subject: Mathematical Physics (math-ph)
subject: FOS: Physical sciences

description: Given an observable and its operator product expansion (OPE), we present expressions that carefully disentangle truncated sums of the perturbative series in powers of $α$ from the non-perturbative (NP) corrections. This splitting is done with NP power accuracy. Analytic control of the splitting is achieved and the organization of the different terms is done along an super/hyper-asymptotic expansion. As a test we apply the methods to the static potential in the large $β_0$ approximation. We see the superasymptotic and hyperasymptotic structure of the observable in full glory.
description: 60 pages, 11 figures, 2 Tables. Minor changes to meet journal version. Conclusions unchanged
Protein structures and optimal folding emerging from a geometrical variational principle
Creators: name: Micheletti, Cristian
name: Banavar, Jayanth R.
name: Maritan, Amos
name: Seno, Flavio
Publisher: name: arXiv
Year: 1998
Subjects: subject: Statistical Mechanics (cond-mat.stat-mech)
subject: Soft Condensed Matter (cond-mat.soft)
subject: Biomolecules (q-bio.BM)
subject: FOS: Physical sciences
subject: FOS: Biological sciences

description: Novel numerical techniques, validated by an analysis of barnase and chymotrypsin inhibitor, are used to elucidate the paramount role played by the geometry of the protein backbone in steering the folding to the correct native state. It is found that, irrespective of the sequence, the native state of a protein has exceedingly large number of conformations with a given amount of structural overlap compared to other compact artificial backbones; moreover the conformational entropies of unrelated proteins of the same length are nearly equal at any given stage of folding. These results are suggestive of an extremality principle underlying protein evolution, which, in turn, is shown to be associated with the emergence of secondary structures.
description: Revtex, 5 pages, 5 postscript figures
Few-Particle Effects in Semiconductor Quantum Dots: Observation of Multi-Charged-Excitons
Creators: name: Hartmann, Arno
name: Ducommun, Yann
name: Kapon, Eli
name: Hohenester, Ulrich
name: Molinari, Elisa
Publisher: name: arXiv
Year: 2000
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: We investigate experimentally and theoretically few-particle effects in the optical spectra of single quantum dots (QDs). Photo-depletion of the QD together with the slow hopping transport of impurity-bound electrons back to the QD are employed to efficiently control the number of electrons present in the QD. By investigating structurally identical QDs, we show that the spectral evolutions observed can be attributed to intrinsic, multi-particle-related effects, as opposed to extrinsic QD-impurity environment-related interactions. From our theoretical calculations we identify the distinct transitions related to excitons and excitons charged with up to five additional electrons, as well as neutral and charged biexcitons.
description: 4 pages, 4 figures, revtex. Accepted for publication in Physical Review Letters
Robust stabilization of polytopic systems via fast and reliable neural network-based approximations
Creators: name: Fabiani, Filippo
name: Goulart, Paul J.
Publisher: name: arXiv
Year: 2022
Subjects: subject: Systems and Control (eess.SY)
subject: Machine Learning (cs.LG)
subject: Optimization and Control (math.OC)
subject: FOS: Electrical engineering, electronic engineering, information engineering
subject: FOS: Computer and information sciences
subject: FOS: Mathematics

description: We consider the design of fast and reliable neural network (NN)-based approximations of traditional stabilizing controllers for linear systems with polytopic uncertainty, including control laws with variable structure and those based on a (minimal) selection policy. Building upon recent approaches for the design of reliable control surrogates with guaranteed structural properties, we develop a systematic procedure to certify the closed-loop stability and performance of a linear uncertain system when a trained rectified linear unit (ReLU)-based approximation replaces such traditional controllers. First, we provide a sufficient condition, which involves the worst-case approximation error between ReLU-based and traditional controller-based state-to-input mappings, ensuring that the system is ultimately bounded within a set with adjustable size and convergence rate. Then, we develop an offline, mixed-integer optimization-based method that allows us to compute that quantity exactly.
The MOSDEF Survey: Significant Evolution in the Rest-Frame Optical Emission Line Equivalent Widths of Star-Forming Galaxies at z=1.4-3.8
Creators: name: Reddy, Naveen A.
name: Shapley, Alice E.
name: Sanders, Ryan L.
name: Kriek, Mariska
name: Coil, Alison L.
name: Shivaei, Irene
name: Freeman, William R.
name: Mobasher, Bahram
name: Siana, Brian
name: Azadi, Mojegan
name: Fetherolf, Tara
name: Fornasini, Francesca M.
name: Leung, Gene
name: Price, Sedona H.
name: Zick, Tom
name: Barro, Guillermo
Publisher: name: arXiv
Year: 2018
Subjects: subject: Astrophysics of Galaxies (astro-ph.GA)
subject: FOS: Physical sciences

description: We use extensive spectroscopy from the MOSFIRE Deep Evolution Field (MOSDEF) survey to investigate the relationships between rest-frame optical emission line equivalent widths ($W$) and a number of galaxy and ISM characteristics for a sample of $1134$ star-forming galaxies at redshifts $1.4\lesssim z\lesssim 3.8$. We examine how the equivalent widths of [OII]$λλ3727, 3730$, H$β$, [OIII]$λλ4960, 5008$, [OIII]$+$H$β$, H$α$, and H$α$+[NII]$λλ6550, 6585$, depend on stellar mass, UV slope, age, star-formation rate (SFR) and specific SFR (sSFR), ionization parameter and excitation conditions (O32 and [OIII]/H$β$), gas-phase metallicity, and ionizing photon production efficiency ($ξ_{\rm ion}$). The trend of increasing $W$ with decreasing stellar mass is strongest for [OIII] (and [OIII]+H$β$). More generally, the equivalent widths of all the lines increase with redshift at a fixed stellar mass or fixed gas-phase metallicity, suggesting that high equivalent width galaxies are common at high redshift. This redshift evolution in equivalent widths can be explained by the increase in SFR and decrease in metallicity with redshift at a fixed stellar mass. Consequently, the dependence of $W$ on sSFR is largely invariant with redshift, particularly when examined for galaxies of a given metallicity. Our results show that high equivalent width galaxies, specifically those with high $W({\rm [OIII]})$, have low stellar masses, blue UV slopes, young ages, high sSFRs, ISM line ratios indicative of high ionization parameters, high $ξ_{\rm ion}$, and low metallicities. As these characteristics are often attributed to galaxies with high ionizing escape fractions, galaxies with high $W$ are likely candidates for the population that dominates cosmic reionization.
description: 34 pages, 8 tables, 28 figures; submitted 2018 August 23, accepted 2018 October 29 to the Astrophysical Journal
An approximation of the Bayesian state observer with Markov chain Monte Carlo propagation stage
Creators: name: Ecker, Lukas
name: Schlacher, Kurt
Publisher: name: arXiv
Year: 2022
Subjects: subject: Optimization and Control (math.OC)
subject: FOS: Mathematics

description: The state estimation problem for nonlinear systems with stochastic uncertainties can be formulated in the Bayesian framework, where the objective is to replace the state completely by its probability density function. Without the restriction to selected system classes and disturbance properties, the Bayesian estimator is particularly interesting for highly nonlinear systems with non-Gaussian noise. The main limitations of Bayesian filters are the significant computational costs and the implementation problems for higher dimensional systems. The present paper introduces a piecewise linear approximation of the Bayesian state observer with Markov chain Monte Carlo propagation stage and kernel density estimation. These methods are suitable for the prediction of multivariate probability density functions. The piecewise linear approximation and the proposed algorithms can increase the estimation performance at reasonable computational cost. The estimation performance is demonstrated in a benchmark comparing the Bayesian state observer with an extended Kalman filter and a particle filter.
Methods of Determination of the Energy and Mass of Primary Cosmic Ray Particles at Extensive Air Shower Energies
Creators: name: Kampert, Karl-Heinz
Publisher: name: arXiv
Year: 2001
Subjects: subject: Astrophysics (astro-ph)
subject: FOS: Physical sciences

description: Measurements of cosmic ray particles at energies above E = 5 x 10^{14} eV are performed by large area ground based air shower experiments. Only they provide the collection power required for obtaining sufficient statistics at the low flux levels involved. In this review we briefly outline the physics and astrophysics interests of such measurements and discuss in more detail various experimental techniques applied for reconstructing the energy and mass of the primary particles. These include surface arrays of particle detectors as well as observations of Cherenkov- and of fluorescence light. A large variety of air shower observables is then reconstructed from such data and used to infer the properties of the primary particles via comparisons to air shower simulations. Advantages, limitations, and systematic uncertainties of different approaches will be critically discussed.
description: 11 pages, invited review presented at the 17th ECRS, Lodz, July 2000; to appear in Journal of Physics G: Nuclear and Particle Physics
Formal category theory in augmented virtual double categories
Creators: name: Koudenburg, Seerp Roald
Publisher: name: arXiv
Year: 2022
Subjects: subject: Category Theory (math.CT)
subject: FOS: Mathematics
subject: 18D65, 18D70, 18N10

description: In this article we develop formal category theory within augmented virtual double categories. Notably we formalise the classical notions of Kan extension, Yoneda embedding $\text y_A\colon A \to \hat A$, exact square, total category and 'small' cocompletion; the latter in an appropriate sense. Throughout we compare our formalisations to their corresponding $2$-categorical counterparts. Our approach has several advantages. For instance, the structure of augmented virtual double categories naturally allows us to isolate conditions that ensure small cocompleteness of formal presheaf objects $\hat A$.
 Given a monoidal augmented virtual double category $\mathcal K$ with a Yoneda embedding $\text y_I \colon I \to \hat I$ for its monoidal unit $I$ we prove that, for any 'unital' object $A$ in $\mathcal K$ that has a 'horizontal dual' $A^\circ$, the Yoneda embedding $\text y_A \colon A \to \hat A$ exists if and only if the 'inner hom' $[A^\circ, \hat I]$ exists. This result is a special case of a more general result that, given a functor $F\colon \mathcal K \to \mathcal L$ of augmented virtual double categories, allows a Yoneda embedding in $\mathcal L$ to be "lifted", along a pair of 'universal morphisms' in $\mathcal L$, to a Yoneda embedding in $\mathcal K$.
description: 126 pages. Comprises a streamlined and much expanded version of Sections 4 and 5 of the draft paper arXiv:1511.04070. v3: Section 5 moved to the end and Proposition 4.26 added. Several other small changes. Major changes in numbering. Final version as published in TAC. v2: many small improvements and small corrections
Additional file 1: of What do care home managers believe constitutes an â assessment for frailtyâ of care home residents in North-West London? A survey
Creators: name: Sunkersing, David
name: Martin, Finbarr
name: Reed, Julie
name: Woringer, Maria
name: Bell, Derek
Publisher: name: figshare
Year: 2019
Subjects: subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Ecology
subject: Sociology
subject: FOS: Sociology
subject: Science Policy
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Assessments for Frailty in Nursing Homes. This is the online survey that was sent to the nursing homes using Qualtrics. (PDF 301 kb)
How to produce new superheavy nuclei?
Creators: name: Siwek-Wilczyńska, K.
name: Cap, T.
name: Kowal, M.
Publisher: name: arXiv
Year: 2018
Subjects: subject: Nuclear Theory (nucl-th)
subject: FOS: Physical sciences

description: Existing experimental facilities limit the possibilities for discovery of new nuclides to those synthesized with cross sections above 100 fb, but the perspectives for future high current accelerators could lower this limit by two orders of magnitude. Therefore, in the present work excitation functions for fusion-$xn$ evaporation reaction channels induced not only by $^{48}Ca$ but also by heavier projectiles (usually leading to smaller cross sections) on actinide targets were calculated in the framework of the fusion-by-diffusion (FBD) model. For the first time, in this approach, channels in which a proton ($pxn$) or alpha particle ($α$$xn$) is evaporated have been included in the first step of the deexcitation cascade. To calculate the synthesis cross sections entry data such as fission barriers, ground-state masses, deformations and shell effects of the superheavy nuclei calculated in a consistent way within the Warsaw macroscopic-microscopic model were used. The only adjustable parameter of the FBD model is the injection point distance $s_{inj}$ and the value determined in our previous analysis of experimental cross sections for the synthesis of superheavy nuclei of Z=114-118 has been used. Excitation functions for the synthesis of selected (cross section above a few fb) new superheavies in the range of atomic numbers 112-120 are presented. Observation of 21 new heaviest isotopes is predicted. A realistic discussion of the FBD model uncertainties is presented for the first time.
Snapshot fiber spectral imaging using speckle correlations and compressive sensing
Creators: name: French, Rebecca
name: Gigan, Sylvain
name: Muskens, Otto L.
Publisher: name: arXiv
Year: 2018
Subjects: subject: Image and Video Processing (eess.IV)
subject: Instrumentation and Detectors (physics.ins-det)
subject: Optics (physics.optics)
subject: FOS: Electrical engineering, electronic engineering, information engineering
subject: FOS: Physical sciences

description: Snapshot spectral imaging is rapidly gaining interest for remote sensing applications. Acquiring spatial and spectral data within one image promotes fast measurement times, and reduces the need for stabilized scanning imaging systems. Many current snapshot technologies, which rely on gratings or prisms to characterize wavelength information, are difficult to reduce in size for portable hyperspectral imaging. Here, we show that a multicore multimode fiber can be used as a compact spectral imager with sub-nanometer resolution, by encoding spectral information within a monochrome CMOS camera. We characterize wavelength-dependent speckle patterns for up to 3000 fiber cores over a broad wavelength range. A clustering algorithm is employed in combination with l$_{1}$-minimization to limit data collection at the acquisition stage for the reconstruction of spectral images that are sparse in the wavelength domain. We also show that in the non-compressive regime these techniques are able to accurately reconstruct broadband information.
End-to-End Zero-Shot Voice Conversion with Location-Variable Convolutions
Creators: name: Kang, Wonjune
name: Hasegawa-Johnson, Mark
name: Roy, Deb
Publisher: name: arXiv
Year: 2022
Subjects: subject: Audio and Speech Processing (eess.AS)
subject: Sound (cs.SD)
subject: FOS: Electrical engineering, electronic engineering, information engineering
subject: FOS: Computer and information sciences

description: Zero-shot voice conversion is becoming an increasingly popular research topic, as it promises the ability to transform speech to sound like any speaker. However, relatively little work has been done on end-to-end methods for this task, which are appealing because they remove the need for a separate vocoder to generate audio from intermediate features. In this work, we propose LVC-VC, an end-to-end zero-shot voice conversion model that uses location-variable convolutions (LVCs) to jointly model the conversion and speech synthesis processes. LVC-VC utilizes carefully designed input features that have disentangled content and speaker information, and it uses a neural vocoder-like architecture that utilizes LVCs to efficiently combine them and perform voice conversion while directly synthesizing time domain audio. Experiments show that our model achieves especially well balanced performance between voice style transfer and speech intelligibility compared to several baselines.
description: INTERSPEECH 2023
Near-field Fourier ptychography: super-resolution phase retrieval via speckle illumination
Creators: name: Zhang, He
name: Jiang, Shaowei
name: Liao, Jun
name: Deng, Junjing
name: Liu, Jian
name: Zhang, Yongbing
name: Zheng, Guoan
Publisher: name: arXiv
Year: 2019
Subjects: subject: Optics (physics.optics)
subject: Image and Video Processing (eess.IV)
subject: FOS: Physical sciences
subject: FOS: Electrical engineering, electronic engineering, information engineering

description: Achieving high spatial resolution is the goal of many imaging systems. Designing a high-resolution lens with diffraction-limited performance over a large field of view remains a difficult task in imaging system design. On the other hand, creating a complex speckle pattern with wavelength-limited spatial features is effortless and can be implemented via a simple random diffuser. With this observation and inspired by the concept of near-field ptychography, we report a new imaging modality, termed near-field Fourier ptychography, for tackling high-resolution imaging challenges in both microscopic and macroscopic imaging settings. The meaning of 'near-field' is referred to placing the object at a short defocus distance with a large Fresnel number. In our implementations, we project a speckle pattern with fine spatial features on the object instead of directly resolving the spatial features via a high-resolution lens. We then translate the object (or speckle) to different positions and acquire the corresponding images using a low-resolution lens. A ptychographic phase retrieval process is used to recover the complex object, the unknown speckle pattern, and the coherent transfer function at the same time. In a microscopic imaging setup, we use a 0.12 numerical aperture (NA) lens to achieve a NA of 0.85 in the reconstruction process. In a macroscale photographic imaging setup, we achieve ~7-fold resolution gain using a photographic lens. The final achievable resolution is not determined by the collection optics. Instead, it is determined by the feature size of the speckle pattern. The reported imaging modality can be employed in light, coherent X-ray, and transmission electron imaging systems to increase resolution and provide quantitative absorption and phase contrast of the object.
description: 15 pages, 14 figures
Additional file 14: of Genome-wide association analysis of nutrient traits in the oyster Crassostrea gigas: genetic effect and interaction network
Creators: name: Meng, Jie
name: Song, Kai
name: Li, Chunyan
name: Liu, Sheng
name: Shi, Ruihui
name: Li, Busu
name: Wang, Ting
name: Li, Ao
name: Que, Huayong
name: Li, Li
name: Zhang, Guofan
Publisher: name: figshare
Year: 2019
Subjects: subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Biological Sciences not elsewhere classified
subject: Information Systems not elsewhere classified
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Plasma Physics

description: Figure S5 Genome-wide analysis of glycogen, protein, and amino acids components. The left panel shows the Manhattan plots of the MLM model. The X axis shows the genomic position in 10 chromosomes and the Y axis shows the significance expressed as -log10-transformed P-value. The right panel shows the Quantile-quantile plot of the MLM model. (DOCX 2787 kb)
Conformal properties of soft-operators - 1 : Use of null-states
Creators: name: Banerjee, Shamik
name: Pandey, Pranjal
name: Paul, Partha
Publisher: name: arXiv
Year: 2019
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: Soft-operators, loosely speaking, are operators which create or annihilate zero energy massless particles on the celestial sphere in Minkowski space. The Lorentz group acts on the celestial sphere by conformal transformation and the soft-operators transform as conformal primary operators of various dimension and spin. Working in space-time dimensions $D=4$ and $6$, we study some properties of the conformal representations with the (leading) soft photon and graviton as the highest weight vectors. Typically these representations contain null-vectors. We argue, from the $S$-matrix point of view, that infinite dimensional asymptotic symmetries and conformal invariance require us to set some of these null-vectors to zero. As a result, the corresponding soft-operator satisfies linear PDE on the celestial sphere. Curiously, these PDEs are equations of motion of Euclidean gauge theories on the celestial sphere with scalar gauge-invariance, i.e, the gauge parameter is a scalar field on the sphere. These are probably related to large $U(1)$ and supertranslation transformations at infinity. Now, the PDE satisfied by the soft-operator can be converted into PDE for the $S$-matrix elements with the insertion of the soft-operator. These equations can then be solved subject to appropriate boundary conditions on the celestial sphere, provided by conformal invariance. The solutions determine the soft $S$-matrix elements, for different helicities of the soft-particle, in terms of a single scalar function. This makes the Ward-identity for the asymptotic symmetry almost integrable. The result of the integration, which we are not able to perform completely, should of course be Weinberg's soft-theorem. Finally, we comment on the similarity between the roles played by null-states in the context of asymptotic symmetry and in string theory in relation to space-time gauge symmetry.
description: Latex, 51 Pages, cosmetic changes, typos corrected, typos corrected
Hydrodynamics of bacterial motion
Creators: name: Csahok, Zoltan
name: Czirok, Andras
Publisher: name: arXiv
Year: 1998
Subjects: subject: Soft Condensed Matter (cond-mat.soft)
subject: Biological Physics (physics.bio-ph)
subject: Quantitative Biology (q-bio)
subject: FOS: Physical sciences
subject: FOS: Biological sciences

description: In this paper we present a hydrodynamic approach to describe the motion of migrating bacteria as a special class of self-propelled systems. Analytical and numerical calculations has been performed to study the behavior of our model in the turbulent-like regime and to show that a phase transition occurs as a function of noise strength. Our results can explain previous experimental observations as well as results of numerical simulations.
description: 8 pages, 10 figures
Additional file 1: of Molecular tumor analysis and liquid biopsy: a feasibility investigation analyzing circulating tumor DNA in patients with central nervous system lymphomas
Creators: name: Anne-Katrin Hickmann
name: Frick, Maximilian
name: Hadaschik, Dirk
name: Battke, Florian
name: Bittl, Markus
name: Ganslandt, Oliver
name: Biskup, Saskia
name: Döcker, Dennis
Publisher: name: figshare
Year: 2019
Subjects: subject: Biochemistry
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Cancer
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: 60506 Virology
subject: Computational Biology

description: Supplemental digital content: 1. Genes covered in the TUM01 NGS tumor panel: list of all genes covered by the panel. 2. Primer and Probes for TaqMan-Assays: sequence of primers used for TaqMan-Assays. 3. Digitial droplet PCR: detailed description of PCR as performed for this study, illustrated by Additional file 2: Figure S1 and Additional file 3: Figure S2. 4. Specific Mutation Pattern of Tumors: list of all detected mutations in the tumors of this study population with detailed explanation on position, kind of mutation, amino acid change and nucleotide change. 5. BioAnalyzer – cfDNA: description of fragment size distribution, illustrated by Additional file 4: Figure S3. (DOCX 60 kb)
Oryctes rhinoceros
Creators: name: Prokofiev, Artem M.
Publisher: name: Zenodo
Year: 2016
Subjects: Biodiversity
Taxonomy
Plantae
Tracheophyta
Magnoliopsida
Solanales
Solanaceae
Oryctes
Oryctes rhinoceros

description: Oryctes rhinoceros (Linnaeus, 1758)
 Scarabaeus rhinoceros Linnaeus, 1758: 346.
 Material. 2 males, Indonesia, Papua, Biak I., Biak Kota, Samau village, Nirmala Hotel, 12 and 18.11.2012, A. M. Prokofiev leg.
 Remarks. This is a widely distributed species known from the whole Oriental and Papuan regions eastward to Polynesia, and a common pest of coconut palms. However, in the present study it was a rare inhabitant of urban lands only.
description: Published as part of Prokofiev, Artem M., 2016, On the Phytophagous Scarabs of the Subfamilies Dynastinae, Rutelinae, and Melolonthinae from the Schouten Islands (Kepulauan Biak), Indonesian Papua (Coleoptera: Scarabaeidae), pp. 71-77 in Species Diversity 21 on page 71, DOI: 10.12782/sd.21.1.071, http://zenodo.org/record/5737668
PAQR3 suppresses the growth of non-small cell lung cancer cells via modulation of EGFR-mediated autophagy
Creators: name: Cao, Qianqian
name: You, Xue
name: Xu, Lijiao
name: Wang, Lin
name: Chen, Yan
Publisher: name: Taylor & Francis
Year: 2019
Subjects: subject: Biochemistry
subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Developmental Biology
subject: Cancer
subject: Hematology
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology

description: Macroautophagy/autophagy is an evolutionarily conserved intracellular process that recycles and degrades intracellular components to sustain homeostasis in response to deficiency of nutrients or growth factors. PAQR3 is a newly discovered tumor suppressor that also regulates autophagy induced by nutrient starvation via AMPK and MTORC1 signaling pathways. In this study, we investigated whether PAQR3 modulates EGFR-mediated autophagy and whether such regulation is associated with the tumor suppressive activity of PAQR3. PAQR3 is able to inhibit the in vitro and in vivo growth of non-small cell lung cancer (NSCLC) cells. PAQR3 potentiates autophagy induced by EGFR inhibitor erlotinib. Knockdown of PAQR3 abrogates erlotinib-mediated reduction of BECN1 interaction with autophagy inhibitory proteins RUBCN/Rubicon and BCL2. PAQR3 blocks the interaction of BECN1 with the activated form of EGFR and inhibits tyrosine phosphorylation of BECN1. Furthermore, inhibition of autophagy by knocking down ATG7 abrogates the tumor suppressive activity of PAQR3 in NSCLC cells. Collectively, these data indicate that PAQR3 suppresses tumor progression of NSCLC cells through modulating EGFR-regulated autophagy. AKT: thymoma viral proto-oncogene; ATG5: autophagy related 5; ATG7: autophagy related 7; ATG14: autophagy related 14; BCL2: B cell leukemia/lymphoma 2; BECN1: beclin 1; CCK-8: cell counting kit-8; CQ: chloroquine diphosphate; DMEM: Dulbecco’s modified Eagle’s medium; EdU: 5-ethynyl-2ʹ-deoxyuridine; EGFR: epidermal growth factor receptor; FBS: fetal bovine serum; GAPDH: glyceraldehyde-3-phosphate dehydrogenase; IgG: Immunoglobulin G; MAP1LC3B/LC3B: microtubule-associated protein 1 light chain 3 beta; MTOR: mechanistic target of rapamycin kinase; MTORC1: mechanistic target of rapamycin kinase complex 1; MTT: thiazolyl blue tetrazolium bromide; NSCLC: Non-small cell lung cancer; MAP2K/MEK: mitogen-activated protein kinase kinase; MAPK/ERK: mitogen-activated protein kinase; PAQR3: progestin and adipoQ receptor family member 3; PI3K: phosphatidylinositol-4,5-bisphosphate 3-kinase; PIK3C3/VPS34: phosphatidylinositol 3-kinase catalytic subunit type 3; PIK3R4/VPS15: phosphoinositide-3-kinase regulatory subunit 4; PRKAA/AMPK: protein kinase, AMP-activated alpha catalytic; RUBCN: rubicon autophagy regulator; RPS6: ribosomal protein S6; RAS: Ras proto-oncogene; RAF: Raf proto-oncogene; TKI: tyrosine kinase inhibitor; TUBA4A: tubulin alpha 4a; UVRAG: UV radiation resistance associated.
Far-infrared c-axis conductivity of flux-grown Y$_{1-x}$Pr$_{x}$Ba$_{2}$Cu$_{3}$O$_{7}$ single crystals studied by spectral ellipsometry
Creators: name: Bernhard, C.
name: Holden, T.
name: Golnik, A.
name: Lin, C. T.
name: Cardona, M.
Publisher: name: arXiv
Year: 2000
Subjects: subject: Superconductivity (cond-mat.supr-con)
subject: FOS: Physical sciences

description: The far-infrared c-axis conductivity of flux-grown Y$_{1-x}$Pr$_{x}$Ba$_{2}$Cu$_{3}$O$_{7}$ single crystals with 0.2$\leq $x$\leq $0.5 has been studied by sepectral ellipsometry. We find that the c-axis response exhibits spectral features similar to deoxygenated underdoped YBa$_{2}$Cu$_{3}$O$_{7-δ}$, i.e., a pseudogap develops in the normal state, the phonon mode at 320 cm$^{-1}$ exhibits an anomalous T-dependence and an additional absorption peak forms at T. This suggests that the T$_{c}$ suppression in flux grown Pr-substituted crystals is caused by a decrease of the hole content and/or by carrier localization rather than by pair breaking.
description: submitted to PRB on 5.4.2000
A SOFIA Survey of [CII] in the galaxy M51 I. [CII] as a tracer of Star Formation
Creators: name: Pineda, Jorge L.
name: Fischer, Christian
name: Kapala, Maria
name: Stutzki, Juergen
name: Buchbender, Christof
name: Goldsmith, Paul F.
name: Ziebart, Monika
name: Glover, Simon C. O.
name: Klessen, Ralf S.
name: Koda, Jin
name: Kramer, Carsten
name: Mookerjea, Bhaswati
name: Sandstrom, Karin
name: Scoville, Nick
name: Smith, Rowan
Publisher: name: arXiv
Year: 2018
Subjects: subject: Astrophysics of Galaxies (astro-ph.GA)
subject: FOS: Physical sciences

description: We present a [CII] 158um map of the entire M51 (including M51b) grand--design spiral galaxy observed with the FIFI-LS instrument on SOFIA. We compare the [CII] emission with the total far--infrared (TIR) intensity and star formation rate(SFR) surface density maps (derived using H_alpha and 24um emission) to study the relationship between [CII] and the star formation activity in a variety of environments within M51 on scales of 16" corresponding to ~660 pc. We find that [CII] and the SFR surface density are well correlated in the central, spiral arm, and inter-arm regions. The correlation is in good agreement with that found for a larger sample of nearby galaxies at kpc scales. We find that the SFR, and [CII] and TIR luminosities in M51 are dominated by the extended emission in M51's disk. The companion galaxy M51b, however, shows a deficit of [CII] emission compared with the TIR emission and SFR surface density, with [CII] emission detected only in the S-W part of this galaxy. The [CII] deficit is associated with an enhanced dust temperature in this galaxy. We interpret the faint [CII] emission in M51b to be a result of suppressed star formation in this galaxy, while the bright mid- and far-infrared emission, which drive the TIR and SFR values, are powered by other mechanisms. A similar but less pronounced effect is seen at the location of the black hole in M51's center. The observed [CII] deficit in M51b suggests that this galaxy is a valuable laboratory to study the origin of the apparent [CII] deficit observed in ultra-luminous galaxies.
description: 10 pages, 4 figures, Accepted for publication in Apj Letters
Data-driven observer design for an inertia wheel pendulum with static friction
Creators: name: Ecker, L.
name: Schöberl, M.
Publisher: name: arXiv
Year: 2022
Subjects: subject: Optimization and Control (math.OC)
subject: FOS: Mathematics

description: An indirect data-driven state observer design approach for the inertia wheel pendulum considering static friction of the actuated inertia disc is presented. The frictional forces occurring in a real laboratory setup are characterized by the Stribeck effect as well as the transition between two different dynamic behaviors, sticking and non-sticking. These switching nonlinear dynamics are identified with various machine learning methodologies in a data-driven manner, i.e., the unsupervised separation and feature clustering of measured state trajectories into two dynamic classes, and the supervised classification of a state-dependent switching condition. The identified system with the interior switching-structure of two dynamics is combined with a moving horizon estimator.
TCAD simulations of pixel sensors for the ATLAS ITk upgrade and performance of annealed planar pixel modules
Creators: name: Beyer, Julien-Christopher
name: La Rosa, Alessandro
name: Macchiolo, Anna
name: Nisius, Richard
name: Savic, Natascha
name: Taibah, Reem
Publisher: name: arXiv
Year: 2018
Subjects: subject: Instrumentation and Detectors (physics.ins-det)
subject: High Energy Physics - Experiment (hep-ex)
subject: FOS: Physical sciences

description: For the high luminosity phase of the Large Hadron Collider to start operation around 2026, a major upgrade of the ATLAS Inner Tracker (ITk) is in preparation. Thanks to their low power dissipation and high charge-collection efficiency after irradiation, thin planar pixel modules are the baseline option to instrument all, except for the innermost layer of the pixel detector. To optimise the sensor layout for a pixel cell size of $50\times50\,μm^2$, TCAD simulations are being performed. Charge-collection efficiency, electronic noise and electrical-field properties are investigated. A radiation-damage model is employed in TCAD simulations to estimate the performance before- and after irradiation. The impact of storage time at room temperature for the ITk pixel detector during maintenance periods are estimated using sensors irradiated up to a fluence of 5$\times10^{15}\,$n$_\text{eq}$/cm$^2$. Pixel sensors of $100-150\,μm$ thickness, interconnected to FE-I4 read-out chips with pixel dimensions of $50\times250\,μm^2$, are characterised using the testbeam facilities at the CERN-SPS and DESY. The charge-collection and hit efficiencies are compared before and after annealing at room temperature for up to one year.
description: 10 pages, 11 figures, proceedings of iWoRiD 2018. arXiv admin note: substantial text overlap with arXiv:1801.02863
MerTK signaling in macrophages promotes the synthesis of inflammation resolution mediators by suppressing CaMKII activity
Creators: name: Bishuang Cai
name: Kasikara, Canan
name: Doran, Amanda C.
name: Rajasekhar Ramakrishnan
name: Birge, Raymond B.
name: Tabas, Ira
Publisher: name: Health Research Alliance
Year: 2019
Subjects: Cell Biology

description: Inflammation resolution counterbalances excessive inflammation and restores tissue homeostasis after injury. Failure of resolution contributes to the pathology of numerous chronic inflammatory diseases. Resolution is mediated by endogenous specialized proresolving mediators (SPMs), which are derived from long-chain fatty acids by lipoxygenase (LOX) enzymes. 5-LOX plays a critical role in the biosynthesis of two classes of SPMs: lipoxins and resolvins. Cytoplasmic localization of the nonphosphorylated form of 5-LOX is essential for SPM biosynthesis, whereas nuclear localization of phosphorylated 5-LOX promotes proinflammatory leukotriene production. We previously showed that MerTK, an efferocytosis receptor on macrophages, promotes SPM biosynthesis by increasing the abundance of nonphosphorylated, cytoplasmic 5-LOX. We now show that activation of MerTK in human macrophages led to ERK-mediated expression of the gene encoding sarcoplasmic/endoplasmic reticulum calcium ATPase 2 (SERCA2), which decreased the cytosolic Ca2+ concentration and suppressed the activity of calcium/ calmodulin-dependent protein kinase II (CaMKII). This, in turn, reduced the activities of the mitogen-activated protein kinase (MAPK) p38 and the kinase MK2, resulting in the increased abundance of the nonphosphorylated, cytoplasmic form of 5-LOX and enhanced SPM biosynthesis. In a zymosan-induced peritonitis model, an inflammatory setting in which macrophage MerTK activation promotes resolution, inhibition of ERK activation delayed resolution, which was characterized by an increased number of neutrophils and decreased amounts of SPMs in tissue exudates. These findings contribute to our understanding of how MerTK signaling induces 5-LOX–derived SPM biosynthesis and suggest a therapeutic strategy to boost inflammation resolution in settings where defective resolution promotes disease progression.
RDM-stars as sources of fast radio bursts
Creators: name: Nikitin, Igor
Publisher: name: arXiv
Year: 2018
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: High Energy Astrophysical Phenomena (astro-ph.HE)
subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: In this work we consider a recently formulated model of a black hole coupled with radially directed flows of dark matter (RDM-star). In this model, a cutoff by quantum gravity (QG) creates a core of Planck density, filled with a gas of Planck mass particles, inside the star. Further, in this model, a fast radio burst (FRB) can be generated via the following mechanism. An object of an asteroid mass falls onto an RDM-star. Due to large gravitational forces available in the interior, the RDM-star works as a powerful accelerator, boosting the nucleons composing the object to extremely high energies. Upon collision with the core, the nucleons enter in deeply inelastic reactions with the Planck particles composing the core. This process is followed by stimulated emission of highly energetic photons. On the way outside, these photons are subjected to a strong redshift factor, downscaling their frequencies to the radio diapason, as a result producing an FRB. A straightforward computation gives a characteristic upper FRB frequency of 0.6GHz. With attenuation factors, it is stretched to a range 0.35-8GHz, fitting well with the observable FRB frequencies. We also discuss the reconstruction of other FRB parameters in frames of the model.
description: added references (ref.12 and ref.42)
Transit timing variations, radial velocities and long-term dynamical stability of the system Kepler-410
Creators: name: Gajdoš, Pavol
name: Vaňko, Martin
name: Pribulla, Theodor
name: Dupkala, Daniel
name: Šubjak, Ján
name: Skarka, Marek
name: Kabáth, Petr
name: Hambálek, Ľubomír
name: Parimucha, Štefan
Publisher: name: arXiv
Year: 2019
Subjects: subject: Earth and Planetary Astrophysics (astro-ph.EP)
subject: Solar and Stellar Astrophysics (astro-ph.SR)
subject: FOS: Physical sciences

description: Transit timing variations of Kepler-410Ab were already reported in a few papers. Their semi-amplitude is about 14.5 minutes. In our previous paper, we found that the transit timing variations could be caused by the presence of a stellar companion in this system. Our main motivation for this paper was to investigate variation in a radial-velocity curve generated by this additional star in the system. We performed spectroscopic observation of Kepler-410 using three telescopes in Slovakia and Czech Republic. Using the cross-correlation function, we measured the radial velocities of the star Kepler-410A. We did not observe any periodic variation in a radial-velocity curve. Therefore, we rejected our previous hypothesis about additional stellar companion in the Kepler-410 system. We ran different numerical simulations to study mean-motion resonances with Kepler-410Ab. Observed transit timing variations could be also explained by the presence of a small planet near to mean-motion resonance 2:3 with Kepler-410Ab. This resonance is stable on a long-time scale. We also looked for stable regions in the Kepler-410 system where another planet could exist for a long time.
description: 8 pages, 7 figures
Galactic Winds in Irregular Starburst Galaxies
Creators: name: Matteucci, F.
name: Recchi, S.
Publisher: name: arXiv
Year: 2001
Subjects: subject: Astrophysics (astro-ph)
subject: FOS: Physical sciences

description: In this paper we present some results concerning the study of the development of galactic winds in blue compact galaxies. In particular, we model a situation very similar to that of the galaxy IZw18, the most metal poor and unevolved galaxy known locally. To do that we compute the chemo-dynamical evolution of a galaxy in the case of one istantaneous isolated starburst as well as in the case of two successive instantaneous starbursts. We show that in both cases a metal enriched wind develops and that the metals produced by the type Ia SNe are lost more efficiently than those produced by type II SNe. We also find that one single burst is able to enrich chemically the surrounding region in few Myr. Both these results are the effect of the assumed efficiency of energy transfer from SNe to ISM and to the consideration of type Ia SNe in this kind of problem. The comparison with observed abundances of IZw18 suggests that this galaxy is likely to have suffered two bursts in its life, with the previous being less intense than the last one.
description: 3 pages, 1 figure, to appear in the Proceedings of the Conference "Cosmic Evolution", Paris, November 2000
Additional file 15: of Genome-wide association analysis of nutrient traits in the oyster Crassostrea gigas: genetic effect and interaction network
Creators: name: Meng, Jie
name: Song, Kai
name: Li, Chunyan
name: Liu, Sheng
name: Shi, Ruihui
name: Li, Busu
name: Wang, Ting
name: Li, Ao
name: Que, Huayong
name: Li, Li
name: Zhang, Guofan
Publisher: name: figshare
Year: 2019
Subjects: subject: Genetics
subject: FOS: Biological sciences
subject: Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Science Policy
subject: Plasma Physics
subject: Hematology
subject: Virology

description: Figure S6 Pairwise LD analysis of the 100 kb-region on both sides of the leading SNP of glycogen and protein. The upper panel shows the GWAS results of the 100 kb-region on both sides of the leading SNP of the trait, whereas, the panel below shows the pairwise LD analysis of the SNPs (P < 2 × 10− 4) included in the region. (DOCX 4156 kb)
Oryctoderus latitarsis Boisduval 1835
Creators: name: Prokofiev, Artem M.
Publisher: name: Zenodo
Year: 2016
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Coleoptera
Dynastidae
Oryctoderus
Oryctoderus latitarsis

description: Oryctoderus latitarsis Boisduval, 1835
 Oryctoderus latitarsis Boisduval, 1835: 160.
 Material. 2 males, Indonesia, Papua, Biak I., Biak Utar, near Napdori village, 2–3 km from right bank of Air Napdori river, black light, 10– 11.11.2012, A. M. Prokofiev leg.; 23 males, 28 females, Yapen I., northern coast, Rosbori village, black light, 13– 14.11.2012, A. M. Prokofiev leg.
 Remarks. This species is widely distributed throughout New Guinea and on adjacent islands westward to the Kei and Tanimbar Is. (Endrödi 1985). All the specimens collected were associated with coconut palms. It was extremely abundant in the coconut groves on the border of a disturbed primary forest.
description: Published as part of Prokofiev, Artem M., 2016, On the Phytophagous Scarabs of the Subfamilies Dynastinae, Rutelinae, and Melolonthinae from the Schouten Islands (Kepulauan Biak), Indonesian Papua (Coleoptera: Scarabaeidae), pp. 71-77 in Species Diversity 21 on page 71, DOI: 10.12782/sd.21.1.071, http://zenodo.org/record/5737668
University Presses and their scientific clouds: 'commodities' for science?
Creators: name: Guatelli, Fulvio
Publisher: name: Zenodo
Year: 2019
Subjects: university press
institutional publishing
open access
academic publishing
scholarly communications

description: This is a presentation by Fulvio Guatelli from Firenze University Press from the AEUP 2nd Conference in Brno, Czech Republic, 13–14 June 2019 “(Re-)Shaping University Presses and Institutional Publishing”.