cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
An efficient hybrid classification approach for COVID-19 based on Harris Hawks Optimization and Salp Swarm Optimization
Creators: name: Issa, Abubakr
name: Ali, Yossra
name: Rashid, Tarik
Publisher: name: arXiv
Year: 2023
Subjects: subject: Neural and Evolutionary Computing (cs.NE)
subject: Machine Learning (cs.LG)
subject: FOS: Computer and information sciences

description: Feature selection can be defined as one of the pre-processing steps that decrease the dimensionality of a dataset by identifying the most significant attributes while also boosting the accuracy of classification. For solving feature selection problems, this study presents a hybrid binary version of the Harris Hawks Optimization algorithm (HHO) and Salp Swarm Optimization (SSA) (HHOSSA) for Covid-19 classification. The proposed (HHOSSA) presents a strategy for improving the basic HHO's performance using the Salp algorithm's power to select the best fitness values. The HHOSSA was tested against two well-known optimization algorithms, the Whale Optimization Algorithm (WOA) and the Grey wolf optimizer (GWO), utilizing a total of 800 chest X-ray images. A total of four performance metrics (Accuracy, Recall, Precision, F1) were employed in the studies using three classifiers (Support vector machines (SVMs), k-Nearest Neighbor (KNN), and Extreme Gradient Boosting (XGBoost)). The proposed algorithm (HHOSSA) achieved 96% accuracy with the SVM classifier, and 98% accuracy with two classifiers, XGboost and KNN.
description: 19 pages
Assessing Climate, land, energy and water interlinkages for policy planning: Case study of Togo
Creators: name: Esso-Wazam Honoré TCHANDAO
Publisher: name: Zenodo
Year: 2023
Subjects: CLEWs

description: In this presentation, the Climate, Land, Energy and Water (CLEWs) systems are addressed to investigate the policy perspectives if Togo aims for net zero by 2050. Four scenarios were explored: Business as Usual, Net zero by 2050, Limited land for solar PV and Limited electricity imports. We used the Open Source Energy Modeling System (OSeMOSYS) to study the interlinkages between climate, land, energy and water, focusing on emissions, land and electricity imports. The results show that it may be cost efficient to rely on electricity imports from neighboring countries in the short term. However, it is also important to consider other solutions, particularly from the perspective of energy security. In addition, the "net zero" objective for agriculture in Togo means phasing out diesel-powered mechanization. Decision-makers may need to promote efficient solar pumping for irrigation from now on.
Additional file 1 of Modeling methyl-sensitive transcription factor motifs with an expanded epigenetic alphabet
Creators: name: Viner, Coby
name: Ishak, Charles A.
name: Johnson, James
name: Walker, Nicolas J.
name: Shi, Hui
name: Sjöberg-Herrera, Marcela K.
name: Shen, Shu Yi
name: Lardo, Santana M.
name: Adams, David J.
name: Ferguson-Smith, Anne C.
name: De Carvalho, Daniel D.
name: Hainer, Sarah J.
name: Bailey, Timothy L.
name: Hoffman, Michael M.
Publisher: name: figshare
Year: 2024
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 1: Fig. S1. Stepwise epigenetic modification of cytosine. Fig. S2. Relationship between unmodified versus modified motif statistical significance of central enrichment (from CentriMo [53]) and modified base calling thresholds across different whole genome bisulfite sequencing (WGBS) and oxidative WGBS (oxWGBS) specimens, in mice [48]. Fig. S3. Relationship between unmodified versus modified ZFP57 statistical significance of central enrichment (from CentriMo [53]) and modified base calling thresholds across different WGBS and oxWGBS specimens, in mice [48]. Fig. S4. Relationship between unmodified versus modified C/EBPβ statistical significance of central enrichment (from CentriMo [53]) and modified base calling thresholds across different WGBS and oxWGBS specimens, in mice [48]. Fig. S5. ZFP57 (Strogantsev et al. [20] CB9; 56 142 ChIP-seq peaks) CentriMo analysis of de novo and JASPAR motifs (Methods). Fig. S6. CentriMo [53] results for OCT4 cleavage under targets and release using nuclease (CUT&RUN) in mouse embryonic stem cells (mESCs). Fig. S7. Modified versus unmodified motifs, combining score and cluster information, for a wide array of transcription factors.
Book Review of 'Evolutionary and Interpretive Archaeologies' Edited by Ethan E. Cochrane and Andrew Gardner
Creators: name: Gabora, Liane
name: Lipo, Carl P.
Publisher: name: arXiv
Year: 2015
Subjects: subject: History and Philosophy of Physics (physics.hist-ph)
subject: Populations and Evolution (q-bio.PE)
subject: FOS: Physical sciences
subject: FOS: Biological sciences

description: Evolutionary and Interpretive Archaeologies, edited by Ethan E. Cochrane and Andrew Gardner, grew out of a seminar at the Institute for Archaeology at University College London in 2007. It consists of 15 chapters by archaeologists who self-identify themselves as practitioners who emphasize the benefits of evolutionary or interpretive approaches to the study of the archaeological record. While the authors' theoretical views are dichotomous, the editors' aim for the book as a whole is not to expound on the differences between these two kinds of archaeology but to bring forward a richer understanding of the discipline and to highlight areas of mutual concern. Some chapters come across as a bit of a sales pitch, but the majority of the contributions emphasize how each approach can be productively used to address the goals of the other. The book seeks to contribute to a mutually beneficial and more productive discipline, and overall, it succeeds in this effort.
description: 10 pages
The vibrio-SquiD symbiosis as a model for studying interbacterial competition
Creators: name: Septer, A.N.
Publisher: name: American Society for Microbiology
Year: 2019

description: The symbiosis between Euprymna scolopes squid and its bioluminescent bacterial symbiont, Vibrio fischeri, is a valuable model system to study a natural, coevolved host-microbe association. Over the past 30 years, researchers have developed and optimized many experimental methods to study both partners in isolation and during symbiosis. These powerful tools, along with a strong foundational knowledge about the system, position the Vibrio-squid symbiosis at the forefront of host-microbe interactions because this system is uniquely suited to investigation of symbiosis from both host and bacterial perspectives. Moreover, the ability to isolate and characterize different strains of V. fischeri has revealed exciting new insights about how different genotypes evolve to compete for a host niche, including deploying interbacterial weapons early during host colonization. This Perspective explores how interbacterial warfare influences the diversity and spatial structure of the symbiotic population, as well as the possible effects that intraspecific competition might have on the host.
Results of 2x2 ANOVA analyses of win rates and choice entropy from Communication and action predictability: two complementary strategies for successful cooperation
Creators: name: Woźniak, Mateusz
name: Knoblich, Guenther
Publisher: name: The Royal Society
Year: 2022
Subjects: subject: 170299 Cognitive Science not elsewhere classified
subject: FOS: Psychology
subject: 179999 Psychology and Cognitive Sciences not elsewhere classified

description: Results of 2x2 ANOVA analyses of win rates and choice entropy
Additional file 2 of Modeling methyl-sensitive transcription factor motifs with an expanded epigenetic alphabet
Creators: name: Viner, Coby
name: Ishak, Charles A.
name: Johnson, James
name: Walker, Nicolas J.
name: Shi, Hui
name: Sjöberg-Herrera, Marcela K.
name: Shen, Shu Yi
name: Lardo, Santana M.
name: Adams, David J.
name: Ferguson-Smith, Anne C.
name: De Carvalho, Daniel D.
name: Hainer, Sarah J.
name: Bailey, Timothy L.
name: Hoffman, Michael M.
Publisher: name: figshare
Year: 2024
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 2: Appendix A. Recommendations for modified nucleobase nomenclature. Table S1. Recommendations for the nomenclature of modified nucleobases, grouped by the unmodified nucleobase.
Investigation of the bosonic spectrum of two-dimensional optical graphene-type lattices. Superfluid phase
Creators: name: Stasyuk, I. V.
name: Velychko, O. V.
name: Dulepa, I. R.
Publisher: name: arXiv
Year: 2014
Subjects: subject: Quantum Gases (cond-mat.quant-gas)
subject: FOS: Physical sciences

description: The energy spectrum of a system of Bose atoms in the superfluid phase in an optical lattice of the graphene type has been studied. The dispersion laws for the energy bands and the single particle spectral densities are calculated in the random phase approximation and in the framework of the hard-core boson formalism, and their changes at the transition from the normal phase to the superfluid one are described. As a result of this transformation, the number of subbands doubles. In the case of the subband energetic equivalence, the Dirac points in the spectrum survive, and their number becomes twice as much. When the subbands are energetically nonequivalent, the Dirac points are absent. The shape of spectral densities is shown to be sensitive to the changes in the temperature and the chemical potential position.
description: 8 pages, 6 figures
Towards Dependable Autonomous Systems Based on Bayesian Deep Learning Components
Creators: name: Arnez, Fabio
name: Espinoza, Huascar
name: Radermacher, Ansgar
name: Terrier, François
Publisher: name: arXiv
Year: 2023
Subjects: subject: Robotics (cs.RO)
subject: Artificial Intelligence (cs.AI)
subject: FOS: Computer and information sciences

description: As autonomous systems increasingly rely on Deep Neural Networks (DNN) to implement the navigation pipeline functions, uncertainty estimation methods have become paramount for estimating confidence in DNN predictions. Bayesian Deep Learning (BDL) offers a principled approach to model uncertainties in DNNs. However, in DNN-based systems, not all the components use uncertainty estimation methods and typically ignore the uncertainty propagation between them. This paper provides a method that considers the uncertainty and the interaction between BDL components to capture the overall system uncertainty. We study the effect of uncertainty propagation in a BDL-based system for autonomous aerial navigation. Experiments show that our approach allows us to capture useful uncertainty estimates while slightly improving the system's performance in its final task. In addition, we discuss the benefits, challenges, and implications of adopting BDL to build dependable autonomous systems.
description: Accepted and presented at the 18th European Dependable Computing Conference (EDCC), Zaragoza, Spain, 2022. arXiv admin note: substantial text overlap with arXiv:2206.01953
Bacterial symbionts use a type VI secretion system to eliminate competitors in their natural host
Creators: name: Smith, S.
name: Septer, A.N.
name: Speare, L.
name: Wollenberg, M.S.
name: Miyashiro, T.
name: Guckes, K.R.
name: Mandel, M.J.
name: Cecere, A.G.
Publisher: name: National Academy of Sciences
Year: 2018

description: Intraspecific competition describes the negative interaction that occurs when different populations of the same species attempt to fill the same niche. Such competition is predicted to occur among host-associated bacteria but has been challenging to study in natural biological systems. Although many bioluminescent Vibrio fischeri strains exist in seawater, only a few strains are found in the light-organ crypts of an individual wild-caught Euprymna scolopes squid, suggesting a possible role for intraspecific competition during early colonization. Using a culture-based assay to investigate the interactions of different V. fischeri strains, we found “lethal” and “nonlethal” isolates that could kill or not kill the well-studied light-organ isolate ES114, respectively. The killing phenotype of these lethal strains required a type VI secretion system (T6SS) encoded in a 50-kb genomic island. Multiple lethal and nonlethal strains could be cultured from the light organs of individual wild-caught adult squid. Although lethal strains eliminate nonlethal strains in vitro, two lethal strains could coexist in interspersed microcolonies that formed in a T6SS-dependent manner. This coexistence was destabilized upon physical mixing, resulting in one lethal strain consistently eliminating the other. When juvenile squid were coinoculated with lethal and nonlethal strains, they occupied different crypts, yet they were observed to coexist within crypts when T6SS function was disrupted. These findings, using a combination of natural isolates and experimental approaches in vitro and in the animal host, reveal the importance of T6SS in spatially separating strains during the establishment of host colonization in a natural symbiosis.
First detection of CF+ towards a high-mass protostar
Creators: name: Fechtenbaum, S.
name: Bontemps, S.
name: Schneider, N.
name: Csengeri, T.
name: Duarte-Cabral, A.
name: Herpin, F.
name: Lefloch, B.
Publisher: name: arXiv
Year: 2015
Subjects: subject: Solar and Stellar Astrophysics (astro-ph.SR)
subject: FOS: Physical sciences

description: We report the first detection of the J = 1 - 0 (102.6 GHz) rotational lines of CF+ (fluoromethylidynium ion) towards CygX-N63, a young and massive protostar of the Cygnus X region. This detection occurred as part of an unbiased spectral survey of this object in the 0.8-3 mm range, performed with the IRAM 30m telescope. The data were analyzed using a local thermodynamical equilibrium model (LTE model) and a population diagram in order to derive the column density. The line velocity (-4 km s-1) and line width (1.6 km s-1) indicate an origin from the collapsing envelope of the protostar. We obtain a CF+ column density of 4.10e11 cm-2. The CF+ ion is thought to be a good tracer for C+ and assuming a ratio of 10e-6 for CF+/C+, we derive a total number of C+ of 1.2x10e53 within the beam. There is no evidence of carbon ionization caused by an exterior source of UV photons suggesting that the protostar itself is the source of ionization. Ionization from the protostellar photosphere is not efficient enough. In contrast, X-ray ionization from the accretion shock(s) and UV ionization from outflow shocks could provide a large enough ionizing power to explain our CF+ detection. Surprisingly, CF+ has been detected towards a cold, massive protostar with no sign of an external photon dissociation region (PDR), which means that the only possibility is the existence of a significant inner source of C+. This is an important result that opens interesting perspectives to study the early development of ionized regions and to approach the issue of the evolution of the inner regions of collapsing envelopes of massive protostars. The existence of high energy radiations early in the evolution of massive protostars also has important implications for chemical evolution of dense collapsing gas and could trigger peculiar chemistry and early formation of a hot core.
description: 6 pages
Enhancement of annihilation cross sections by electric interactions between the antineutron and the field of a large nucleus
Creators: name: Bianconi, A.
name: Rizzini, E. Lodi
name: Mascagna, V.
name: Venturelli, L.
Publisher: name: arXiv
Year: 2015
Subjects: subject: Nuclear Theory (nucl-th)
subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: Data relative to antineutron and antiproton annihilation on large nuclei in the range 75-200 MeV/c present two unexpected features: (a) antineutron and antiproton cross sections have a similar size, (ii) the rise of the antineutron cross section at decreasing energy is much steeper than predictable for an inelastic process of purely strong nature at that energy. The observed behavior of antineutron-nucleus annihilations is similar to what would be expected for antiproton-nucleus annihilations, where Coulomb attraction focusses antiproton trajectories towards the nucleus, enhancing the inelastic cross section by a factor O(1/p) with respect to antineutrons on the same target. This results in a 1/p^2 behavior at small energies. The presence of a similar enhancement in the antineutron case may only be justified by an interaction with a longer range than strong interactions. Excluding a Coulomb force because of the antineutron neutrality, and taking into account that an intrinsic electric dipole is forbidden for the antineutron, the next choice is an electric dipole that is induced by the nuclear electric field. Recent theoretical works have shown that a non-negligible electric polarization may be induced in a neutron by QED vacuum polarization. Assuming this as a possibility, we have used a simple model to calculate the polarization strengths that are needed to fit the available data in terms of this effect. These are within the magnitude predicted by the vacuum polarization model. We have also discussed alternative scenarios that could induce an electric polarization of the antineutron as a consequence of the interplay between strong and e.m. interactions.
description: 6 pages 2 figures
FINANCIAL VIABILITY OF A SOLAR POWER PLANT 25 MWp WITH STORAGE INSTALLED IN BENIN (ICTP 2023)_presentation
Creators: name: ADJAHOUNZO, Olivier
Publisher: name: Zenodo
Year: 2023
Subjects: solar with storage on grid, Debt Service Coverage, Repayment Time

description: This study determined that with a 36% subsidy financing structure, production cost of electricity could be reduced by 25% to 50% without putting pressure on the National Budget.
An expanded transposon mutant library reveals that Vibrio fischeri δ-aminolevulinate auxotrophs can colonize Euprymna scolopes
Creators: name: Lyell, N.L.
name: Duckett, D.
name: Dunn, A.K.
name: Septer, A.N.
name: Stabb, E.V.
name: Stoudenmire, J.L.
Publisher: name: American Society for Microbiology
Year: 2017

description: Libraries of defined mutants are valuable research tools but necessarily lack gene knockouts that are lethal under the conditions used in library construction. In this study, we augmented a Vibrio fischeri mutant library generated on a rich medium (LBS, which contains [per liter] 10 g of tryptone, 5 g of yeast extract, 20 g of NaCl, and 50 mM Tris [pH 7.5]) by selecting transposon insertion mutants on supplemented LBS and screening for those unable to grow on LBS. We isolated strains with insertions in alr, glr (murI), glmS, several heme biosynthesis genes, and ftsA, as well as a mutant disrupted 14 bp upstream of ftsQ. Mutants with insertions in ftsA or upstream of ftsQ were recovered by addition of Mg2+ to LBS, but their cell morphology and motility were affected. The ftsA mutant was more strongly affected and formed cells or chains of cells that appeared to wind back on themselves helically. Growth of mutants with insertions in glmS, alr, or glr was recovered with N-acetylglucosamine (NAG), D-alanine, or D-glutamate, respectively. We hypothesized that NAG, D-alanine, or D-glutamate might be available to V. fischeri in the Euprymna scolopes light organ; however, none of these mutants colonized the host effectively. In contrast, hemA and hemL mutants, which are auxotrophic for δ-aminolevulinate (ALA), colonized at wild-type levels, although mutants later in the heme biosynthetic pathway were severely impaired or unable to colonize. Our findings parallel observations that legume hosts provide Bradyrhizobium symbionts with ALA, but they contrast with virulence phenotypes of hemA mutants in some pathogens. The results further inform our understanding of the symbiotic light organ environment.
Modified holographic Ricci dark energy coupled to interacting relativistic and non-relativistic dark matter in the nonflat universe
Creators: name: Li, En-Kun
name: Zhang, Yu
name: Geng, Jin-Ling
Publisher: name: arXiv
Year: 2014
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: Cosmology and Nongalactic Astrophysics (astro-ph.CO)
subject: High Energy Physics - Theory (hep-th)
subject: FOS: Physical sciences

description: The modified holographic Ricci dark energy coupled to interacting relativistic and non-relativistic dark matter is considered in the nonflat Friedmann-Robertson-Walker universe. Through examining the deceleration parameter, one can find that the transition time of the Universe from decelerating to accelerating phase in the interacting holographic Ricci dark energy model is close to that in the $Λ$ cold dark matter model. The evolution of modified holographic Ricci dark energy's state parameter and the evolution of dark matter and dark energy's densities shows that the dark energy holds the dominant position from the near past to the future. By studying the statefinder diagnostic and the evolution of the total pressure, one can find that this model could explain the Universe's transition from the radiation to accelerating expansion stage through the dust stage. According to the $Om$ diagnostic, it is easy to find that when the interaction is weak and the proportion of relativistic dark matter in total dark matter is small, this model is phantom-like. Through our studying, we find the interaction and the relativistic dark matter's proportion all have great influence on the evolution of the Universe.
description: 14 pages, 8 figures
Additional file 3 of Modeling methyl-sensitive transcription factor motifs with an expanded epigenetic alphabet
Creators: name: Viner, Coby
name: Ishak, Charles A.
name: Johnson, James
name: Walker, Nicolas J.
name: Shi, Hui
name: Sjöberg-Herrera, Marcela K.
name: Shen, Shu Yi
name: Lardo, Santana M.
name: Adams, David J.
name: Ferguson-Smith, Anne C.
name: De Carvalho, Daniel D.
name: Hainer, Sarah J.
name: Bailey, Timothy L.
name: Hoffman, Michael M.
Publisher: name: figshare
Year: 2024
Subjects: subject: Genetics
subject: FOS: Biological sciences

description: Additional file 3. Review history.
Exploiting array manipulation habits to optimize garbage collection and type flow analysis
Creators: name: Colnet, Dominique
name: Sonntag, Benoît
Publisher: name: arXiv
Year: 2023
Subjects: subject: Programming Languages (cs.PL)
subject: FOS: Computer and information sciences

description: A widespread practice to implement a flexible array is to consider the storage area into two parts: the used area, which is already available for read/write operations, and the supply area, which is used in case of enlargement of the array. The main purpose of the supply area is to avoid as much as possible the reallocation of the whole storage area in case of enlargement. As the supply area is not used by the application, the main idea of the paper is to convey the information to the garbage collector, making it possible to avoid completely the marking of the supply area. We also present a simple method to analyze the types of objects, which are stored in an array as well as the possible presence of NULL values within the array. This allows us to better specialize the work of the garbage collector when marking the used area, and also, by transitivity, to improve overall results for type analysis of all expressions of the source code. After introducing several abstract data types, which represent the main arrays concerned by our technique (i.e., zero or variable indexing, circular arrays and hash maps), we measure its impact during the bootstrap of two compilers whose libraries are equipped with these abstract data types. We then measure, on various software products we have not written, the frequency of certain habits of manipulation of arrays, to assess the validity of our approach.
Two independent pathways for self-recognition in Proteus mirabilis are linked by type VI-dependent export
Creators: name: Gibbs, K.A.
name: Sullivan, N.L.
name: Wenren, L.M.
name: Septer, A.N.
name: Cardarelli, L.
Publisher: name: American Society for Microbiology
Year: 2013

description: Swarming colonies of the bacterium Proteus mirabilis are capable of self-recognition and territorial behavior. Swarms of independent P. mirabilis isolates can recognize each other as foreign and establish a visible boundary where they meet; in contrast, genetically identical swarms merge. The ids genes, which encode self-identity proteins, are necessary but not sufficient for this territorial behavior. Here we have identified two new gene clusters: one (idr) encodes rhs-related products, and another (tss) encodes a putative type VI secretion (T6S) apparatus. The Ids and Idr proteins function independently of each other in extracellular transport and in territorial behaviors; however, these self-recognition systems are linked via this type VI secretion system. The T6S system is required for export of select Ids and Idr proteins. Our results provide a mechanistic and physiological basis for the fundamental behaviors of self-recognition and territoriality in a bacterial model system. IMPORTANCE Our results support a model in which self-recognition in P. mirabilis is achieved by the combined action of two independent pathways linked by a shared machinery for export of encoded self-recognition elements. These proteins together form a mechanistic network for self-recognition that can serve as a foundation for examining the prevalent biological phenomena of territorial behaviors and self-recognition in a simple, bacterial model system.
Planning Visual Inspection Tours for a 3D Dubins Airplane Model in an Urban Environment
Creators: name: Hague, Collin
name: Willis, Andrew
name: Maity, Dipankar
name: Wolek, Artur
Publisher: name: arXiv
Year: 2023
Subjects: subject: Systems and Control (eess.SY)
subject: Robotics (cs.RO)
subject: FOS: Electrical engineering, electronic engineering, information engineering
subject: FOS: Computer and information sciences

description: This paper investigates the problem of planning a minimum-length tour for a three-dimensional Dubins airplane model to visually inspect a series of targets located on the ground or exterior surface of objects in an urban environment. Objects are 2.5D extruded polygons representing buildings or other structures. A visibility volume defines the set of admissible (occlusion-free) viewing locations for each target that satisfy feasible airspace and imaging constraints. The Dubins traveling salesperson problem with neighborhoods (DTSPN) is extended to three dimensions with visibility volumes that are approximated by triangular meshes. Four sampling algorithms are proposed for sampling vehicle configurations within each visibility volume to define vertices of the underlying DTSPN. Additionally, a heuristic approach is proposed to improve computation time by approximating edge costs of the 3D Dubins airplane with a lower bound that is used to solve for a sequence of viewing locations. The viewing locations are then assigned pitch and heading angles based on their relative geometry. The proposed sampling methods and heuristics are compared through a Monte-Carlo experiment that simulates view planning tours over a realistic urban environment.
description: 18 pages, 10 figures, Presented at 2023 SciTech Intelligent Systems in Guidance Navigation and Control conference
Slowly rotating perfect fluids with a cosmological constant
Creators: name: Boehmer, Christian G.
name: Wright, Matthew
Publisher: name: arXiv
Year: 2014
Subjects: subject: General Relativity and Quantum Cosmology (gr-qc)
subject: FOS: Physical sciences

description: Hartle's slow rotation formalism is developed in the presence of a cosmological constant. We find the generalisation of the Hartle-Thorne vacuum metric, the Hartle-Thorne-(anti)-de Sitter metric, and find that it is always asymptotically (anti)-de Sitter. Next we consider Wahlquist's rotating perfect fluid interior solution in Hartle's formalism and discuss its matching to the Hartle-Thorne-(anti)-de Sitter metric. It is known that the Wahlquist solution cannot be matched to an asymptotically flat region and therefore does not provide a model of an isolated rotating body in this context. However, in the presence of a cosmological term, we find that it can be matched to an asymptotic (anti)-de Sitter space and we are able to interpret the Wahlquist solution as a model of an isolated rotating body, to second order in the angular velocity.
description: 19 pages, 2 figures
Digital Microfluidics? How Magnetically Driven Orientation of Pillars Influences Droplet Positioning
Creators: name: Bolteau, Blandine
name: Gelebart, Frédéric
name: Teisseire, Jérémie
name: Barthel, Etienne
name: Fresnais, Jérôme
Publisher: name: arXiv
Year: 2023
Subjects: subject: Soft Condensed Matter (cond-mat.soft)
subject: FOS: Physical sciences

description: Interfaces between a water droplet and a network of pillars produce eventually superhydrophobic, self-cleaning properties. Considering the surface fraction of the surface in interaction with water, it is possible to tune precisely the contact angle hysteresis (CAH) to low values, which is at the origin of the poor adhesion of water droplets, inducing their high mobility on such a surface. However, if one wants to move and position a droplet, the lower the CAH, the less precise will be the positioning on the surface. While rigid surfaces limit the possibilities of actuation, smart surfaces have been devised with which a stimulus can be used to trigger the displacement of a droplet. Light, electron beam, mechanical stimulation like vibration, or magnetism can be used to induce a displacement of droplets on surfaces and transfer them from one position to the targeted one. Among these methods, only few are reversible, leading to anisotropy-controlled orientation of the structured interface with water. Magnetically driven superhydrophobic surfaces are the most promising reprogramming surfaces that can lead to the control of wettability and droplet guidance.
Additional file 1 of A meta systematic review of artificial intelligence in higher education: a call for increased ethics, collaboration, and rigour
Creators: name: Bond, Melissa
name: Khosravi, Hassan
name: De Laat, Maarten
name: Bergdahl, Nina
name: Negrea, Violeta
name: Oxley, Emily
name: Pham, Phuong
name: Chong, Sin Wang
name: Siemens, George
Publisher: name: figshare
Year: 2024
Subjects: subject: Medicine
subject: Ecology
subject: FOS: Biological sciences
subject: Cancer
subject: Science Policy

description: Additional file 1: Appendix A. List of studies in the corpus by thematic focus.
The iron-dependent regulator fur controls pheromone signaling systems and luminescence in the squid symbiont Vibrio fischeri ES114
Creators: name: Septer, A.N.
name: Stabb, E.V.
name: Lyell, N.L.
Publisher: name: American Society for Microbiology
Year: 2013

description: Bacteria often use pheromones to coordinate group behaviors in specific environments. While high cell density is required for pheromones to achieve stimulatory levels, environmental cues can also influence pheromone accumulation and signaling. For the squid symbiont Vibrio fischeri ES114, bioluminescence requires pheromone-mediated regulation, and this signaling is induced in the host to a greater extent than in culture, even at an equivalent cell density. Our goal is to better understand this environment-specific control over pheromone signaling and bioluminescence. Previous work with V. fischeri MJ1 showed that iron limitation induces luminescence, and we recently found that ES114 encounters a low-iron environment in its host. Here we show that ES114 induces luminescence at lower cell density and achieves brighter luminescence in low-iron media. This iron-dependent effect on luminescence required ferric uptake regulator (Fur), which we propose influences two pheromone signaling master regulators, LitR and LuxR. Genetic and bioinformatic analyses suggested that under low-iron conditions, Fur-mediated repression of litR is relieved, enabling more LitR to perform its established role as an activator of luxR. Interestingly, Fur may similarly control the LitR homolog SmcR of Vibrio vulnificus. These results reveal an intriguing regulatory link between lowiron conditions, which are often encountered in host tissues, and pheromone-dependent master regulators.
Variant prioritisation results (ENCODE intersect-set)
Creators: name: Traversa, Daniele
Publisher: name: figshare
Year: 2022
Subjects: subject: 60102 Bioinformatics
subject: FOS: Computer and information sciences
subject: 60408 Genomics
subject: FOS: Biological sciences
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: 60412 Quantitative Genetics (incl. Disease and Trait Mapping Genetics)

description: Results emerging from the variant prioritization analysis considering the ENCODE intersection-set as dataset for regualtory regions.
Zeeman-Splitting-Assisted Quantum Logic Spectroscopy of Trapped Ions
Creators: name: Loh, Huanqian
name: Ding, Shiqian
name: Hablutzel, Roland
name: Maslennikov, Gleb
name: Matsukevich, Dzmitry
Publisher: name: arXiv
Year: 2014
Subjects: subject: Atomic Physics (physics.atom-ph)
subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: We present a quantum logic scheme to detect atomic and molecular ions in different states of angular momentum based on their magnetic $g$-factors. The state-dependent magnetic $g$-factors mean that electronic, rotational or hyperfine states may be distinguished by their Zeeman splittings in a given magnetic field. Driving motional sidebands of a chosen Zeeman splitting enables reading out the corresponding state of angular momentum with an auxillary logic ion. As a proof-of-principle demonstration, we show that we can detect the ground electronic state of a ${^{174}}$Yb$^+$ ion using ${^{171}}$Yb$^+$ as the logic ion. Further, we can distinguish between the ${^{174}}$Yb$^+$ ion being in its ground electronic state versus the metastable ${^{2}}D_{3/2}$ state. We discuss the suitability of this scheme for the detection of rotational states in molecular ions.
description: 5 pages, 4 figures
Financial Viability Analysis of 1,000MW Solar PV Plant in Jigawa ,Nigeria
Creators: name: OGBEMUDIA GODFREY
Publisher: name: Zenodo
Year: 2023
Subjects: Solar PV, Utility scale, Nigeria, 1000MW,

description: Nigeria has agenda 30:30:30 aimed at generating 30W of electricty from Renewable energy making 30% of total energy mix by 2030. The proposed 1,000 MW solar Park to be situated in Jigawa state, Northern Nigeria will contribute to achieving this target. This study assessed the financial viability of the 1,000MW plant as a cheap source of electricity and also assessed possible impact of exchange rate and capacity utilization on the viability of this project. The study showed that selling electrcity as low as 10 naira per kilowatts hour, the plant is profitable at 10 naira per kilowatts of electricity tariff at various utilization capacity(25, 17, 15%) with reduction in exchange rate(10% annually). however, Even with a steady exchange rate under worst capacity utilization (15%) as shown in the second case, it was not profitable at 10 naira/kwh with: NPV= -2.93, IRR=0 %
Nuclear level densities and $γ$-ray strength functions in $^{120,124}$Sn isotopes: impact of Porter-Thomas fluctuations
Creators: name: Markova, M.
name: Larsen, A. C.
name: von Neumann-Cosel, P.
name: Bassauer, S.
name: Görgen, A.
name: Guttormsen, M.
name: Garrote, F. L. Bello
name: Berg, H. C.
name: Bjørøen, M. M.
name: Eriksen, T. K.
name: Gjestvang, D.
name: Isaak, J.
name: Mbabane, M.
name: Paulsen, W.
name: Pedersen, L. G.
name: Pettersen, N. I. J.
name: Richter, A.
name: Sahin, E.
name: Scholz, P.
name: Siem, S.
name: Tveten, G. M.
name: Valsdottir, V. M.
name: Wiedeking, M.
Publisher: name: arXiv
Year: 2023
Subjects: subject: Nuclear Experiment (nucl-ex)
subject: FOS: Physical sciences

description: Nuclear level densities (NLDs) and $γ$-ray strength functions (GSFs) of $^{120,124}$Sn have been extracted with the Oslo method from proton-$γ$ coincidences in the ($p,p^{\prime}γ)$ reaction. The functional forms of the GSFs and NLDs have been further constrained with the Shape method by studying primary $γ$-transitions to the ground and first excited states.The NLDs demonstrate good agreement with the NLDs of $^{116,118,122}$Sn isotopes measured previously. Moreover, the extracted partial NLD of 1$^{-}$ levels in $^{124}$Sn is shown to be in fair agreement with those deduced from spectra of relativistic Coulomb excitation in forward-angle inelastic proton scattering. The experimental NLDs have been applied to estimate the magnitude of the Porter-Thomas (PT) fluctuations. Within the PT fluctuations, we conclude that the GSFs for both isotopes can be considered to be independent of initial and final excitation energies, in accordance with the generalized Brink-Axel hypothesis. Particularly large fluctuations observed in the Shape-method GSFs present a considerable contribution to the uncertainty of the method, and may be one of the reasons for deviations from the Oslo-method strength at low $γ$-ray energies and low values of the NLD (below $\approx1\cdot10^{3}-2\cdot10^{3}$ MeV$^{-1}$).
description: 17 pages, 12 figures
Additional file 2 of A meta systematic review of artificial intelligence in higher education: a call for increased ethics, collaboration, and rigour
Creators: name: Bond, Melissa
name: Khosravi, Hassan
name: De Laat, Maarten
name: Bergdahl, Nina
name: Negrea, Violeta
name: Oxley, Emily
name: Pham, Phuong
name: Chong, Sin Wang
name: Siemens, George
Publisher: name: figshare
Year: 2024
Subjects: subject: Medicine
subject: Ecology
subject: FOS: Biological sciences
subject: Cancer
subject: Science Policy

description: Additional file 2: Appendix B. Types of evidence synthesis published in AIEd higher education.
Coordination of the Arc Regulatory System and Pheromone-Mediated Positive Feedback in Controlling the Vibrio fischeri lux Operon
Creators: name: Septer, A.N.
name: Stabb, E.V.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2012

description: Bacterial pheromone signaling is often governed both by environmentally responsive regulators and by positive feedback. This regulatory combination has the potential to coordinate a group response among distinct subpopulations that perceive key environmental stimuli differently. We have explored the interplay between an environmentally responsive regulator and pheromone-mediated positive feedback in intercellular signaling by Vibrio fischeri ES114, a bioluminescent bacterium that colonizes the squid Euprymna scolopes. Bioluminescence in ES114 is controlled in part by N-(3-oxohexanoyl)-L-homoserine lactone (3OC6), a pheromone produced by LuxI that together with LuxR activates transcription of the luxICDABEG operon, initiating a positive feedback loop and inducing luminescence. The lux operon is also regulated by environmentally responsive regulators, including the redox-responsive ArcA/ArcB system, which directly represses lux in culture. Here we show that inactivating arcA leads to increased 3OC6 accumulation to initiate positive feedback. In the absence of positive feedback, arcA-mediated control of luminescence was only ~2-fold, but luxI-dependent positive feedback contributed more than 100 fold to the net induction of luminescence in the arcA mutant. Consistent with this overriding importance of positive feedback, 3OC6 produced by the arcA mutant induced luminescence in nearby wild-type cells, overcoming their ArcA repression of lux. Similarly, we found that artificially inducing ArcA could effectively repress luminescence before, but not after, positive feedback was initiated. Finally, we show that 3OC6 produced by a subpopulation of symbiotic cells can induce luminescence in other cells co-colonizing the host. Our results suggest that even transient loss of ArcA-mediated regulation in a sub-population of cells can induce luminescence in a wider community. Moreover, they indicate that 3OC6 can communicate information about both cell density and the state of ArcA/ArcB.
A lattice study of a chirally invariant Higgs-Yukawa model including a higher dimensional $Φ^6$-term
Creators: name: Chu, David Y. -J.
name: Jansen, Karl
name: Knippschild, Bastian
name: Lin, C. -J. David
name: Nagy, Attila
Publisher: name: arXiv
Year: 2015
Subjects: subject: High Energy Physics - Lattice (hep-lat)
subject: High Energy Physics - Phenomenology (hep-ph)
subject: FOS: Physical sciences

description: We discuss the non-thermal phase structure of a chirally invariant Higgs-Yukawa model on the lattice in the presence of a higher dimensional $Φ^6$-term. For the exploration of the phase diagram we use analytical, lattice perturbative calculations of the constraint effectice potential as well as numerical simulations. We also present first results of the effects of the $Φ^6$-term on the lower Higgs boson mass bounds.
The Escherichia coli protein YfeX functions as a porphyrinogen oxidase, not a heme dechelatase
Creators: name: Daugherty, L.
name: Stabb, E.V.
name: Dailey, T.A.
name: Septer, A.N.
name: Thames, D.
name: Phillips, J.D.
name: Dunn, A.K.
name: Dailey, H.A.
name: Gerdes, S.
Publisher: name: American Society for Microbiology
Year: 2011

description: The protein YfeX from Escherichia coli has been proposed to be essential for the process of iron removal from heme by carrying out a dechelation of heme without cleavage of the porphyrin macrocycle. Since this proposed reaction is unique and would represent the first instance of the biological dechelation of heme, we undertook to characterize YfeX. Our data reveal that YfeX effectively decolorizes the dyes alizarin red and Cibacron blue F3GA and has peroxidase activity with pyrogallal but not guiacol. YfeX oxidizes protoporphyrinogen to protoporphyrin in vitro. However, we were unable to detect any dechelation of heme to free porphyrin with purified YfeX or in cellular extracts of E. coli overexpressing YfeX. Additionally, Vibrio fischeri, an organism that can utilize heme as an iron source when grown under iron limitation, is able to grow with heme as the sole source of iron when its YfeX homolog is absent. Plasmid-driven expression of YfeX in V. fischeri grown with heme did not result in accumulation of protoporphyrin. We propose that YfeX is a typical dye-decolorizing peroxidase (or DyP) and not a dechelatase. The protoporphyrin reported to accumulate when YfeX is overexpressed in E. coli likely arises from the intracellular oxidation of endogenously synthesized protoporphyrinogen and not from dechelation of exogenously supplied heme. Bioinformatic analysis of bacterial YfeX homologs does not identify any connection with iron acquisition but does suggest links to anaerobic-growth-related respiratory pathways. Additionally, some genes encoding homologs of YfeX have tight association with genes encoding a bacterial cytoplasmic encapsulating protein.
The Software Heritage Open Science Ecosystem
Creators: name: Di Cosmo, Roberto
name: Zacchiroli, Stefano
Publisher: name: arXiv
Year: 2023
Subjects: subject: Software Engineering (cs.SE)
subject: FOS: Computer and information sciences

description: Software Heritage is the largest public archive of software source code and associated development history, as captured by modern version control systems. As of July 2023, it has archived more than 16 billion unique source code files coming from more than 250 million collaborative development projects. In this chapter, we describe the Software Heritage ecosystem, focusing on research and open science use cases.On the one hand, Software Heritage supports empirical research on software by materializing in a single Merkle direct acyclic graph the development history of public code. This giant graph of source code artifacts (files, directories, and commits) can be used-and has been used-to study repository forks, open source contributors, vulnerability propagation, software provenance tracking, source code indexing, and more.On the other hand, Software Heritage ensures availability and guarantees integrity of the source code of software artifacts used in any field that relies on software to conduct experiments, contributing to making research reproducible. The source code used in scientific experiments can be archived-e.g., via integration with open-access repositories-referenced using persistent identifiers that allow downstream integrity checks and linked to/from other scholarly digital artifacts.
Three-dimensional broadband FDTD optical simulations of CMOS image sensor
Creators: name: Crocherie, A.
name: Vaillant, Jérôme
name: Hirigoyen, F.
Publisher: name: arXiv
Year: 2023
Subjects: subject: Optics (physics.optics)
subject: Instrumentation and Detectors (physics.ins-det)
subject: FOS: Physical sciences

description: In this paper, we present the results of rigorous electromagnetic broadband simulations applied to CMOS image sensors as well as experimental measurements. We firstly compare the results of 1D, 2D, and 3D broadband simulations in the visible range (380nm-720nm) of a 1.75$μ$m CMOS image sensor, emphasizing the limitations of 1D and 2D simulations and the need of 3D modeling, particularly to rigorously simulate parameters like Quantum Efficiency. Then we illustrate broadband simulations by two proposed solutions that improve the spectral response of the sensor: an antireflective coating, and the reduction of the optical stack. We finally show that results from experimental measurements are in agreement with the simulated results.
Additional file 3 of A meta systematic review of artificial intelligence in higher education: a call for increased ethics, collaboration, and rigour
Creators: name: Bond, Melissa
name: Khosravi, Hassan
name: De Laat, Maarten
name: Bergdahl, Nina
name: Negrea, Violeta
name: Oxley, Emily
name: Pham, Phuong
name: Chong, Sin Wang
name: Siemens, George
Publisher: name: figshare
Year: 2024
Subjects: subject: Medicine
subject: Ecology
subject: FOS: Biological sciences
subject: Cancer
subject: Science Policy

description: Additional file 3: Appendix C. Journals and conference proceedings.
SOLAR PROJECT FINANCE OPTIMATIZATION FOR THE KALEO SOLAR POWER PLANT-PHASE II, UPPER WEST REGION, GHANA
Creators: name: Sibawei, Rashida
Publisher: name: Zenodo
Year: 2023
Subjects: Solar Power plant

description: The Kaleo Solar Power Plant is a renewable energy project aimed at harnessing solar energy to generate electricity in Ghana. Kaleo Solar Plant Phase I generates 13MW of electricity. This case study is based on the phase II of the project with 15MW capacity. The project is financed with both equity and debt and has an estimated cost of about 11.5 million USD.
Power Posing Meta Analysis
Creators: name: Röseler, Lukas
name: Körner, Robert
Publisher: name: Open Science Framework
Year: 2022
Subjects: subject: Social Psychology
subject: Experimental Analysis of Behavior
subject: Psychology
subject: FOS: Psychology
subject: Social and Behavioral Sciences
subject: body positions
subject: meta-analysis
subject: power posing

description: This is a Preregistration for a Meta-Analysis on the Effects of Power Poses, Postures, and Overall Body Positions
Phonon nanocapacitor for storage and lasing of terahertz lattice waves
Creators: name: Han, Haoxue
name: Li, Baowen
name: Volz, Sebastian
name: Kosevich, Yuriy A.
Publisher: name: arXiv
Year: 2014
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: We introduce a novel ultra-compact nanocapacitor of coherent phonons formed by high-finesse interference mirrors based on atomic-scale semiconductor metamaterials. Our molecular dynamics simulations show that the nanocapacitor stores THz monochromatic lattice waves, which can be used for phonon lasing - the emission of coherent phonons. Either one- or two-color phonon lasing can be realized depending on the geometry of the nanodevice. The two color regimes of the capacitor originates from the distinct transmittance dependance on the phonon wave packet incident angle for the two phonon polarizations at their respective resonances. Phonon nanocapacitor can be charged by cooling the sample equilibrated at room temperature or by the pump-probe technique. The nanocapacitor can be discharged by applying tunable reversible strain, resulting in the emission of coherent THz acoustic beams.
description: 12 pages, 5 figures