cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Learning Koopman eigenfunctions of stochastic diffusions with optimal importance sampling and ISOKANN
Creators: name: Sikorski, Alexander
name: Borrell, Enric Ribera
name: Weber, Marcus
Publisher: name: arXiv
Year: 2023
Subjects: subject: Dynamical Systems (math.DS)
subject: Probability (math.PR)
subject: FOS: Mathematics

description: For stochastic diffusion processes the dominant eigenfunctions of the corresponding Koopman operator contain important information about the slow-scale dynamics, that is, about the location and frequency of rare events. In this article, we reformulate the eigenproblem in terms of $χ$-functions in the ISOKANN framework and discuss how optimal control and importance sampling allows for zero variance sampling of these functions. We provide a new formulation of the ISOKANN algorithm allowing for a proof of convergence and incorporate the optimal control result to obtain an adaptive iterative algorithm alternating between importance sampling and $χ$-function approximation. We demonstrate the usage of our proposed method in experiments increasing the approximation accuracy by several orders of magnitude.
An electromechanics-driven fluid dynamics model for the simulation of the whole human heart
Creators: name: Zingaro, Alberto
name: Bucelli, Michele
name: Piersanti, Roberto
name: Regazzoni, Francesco
name: Dede', Luca
name: Quarteroni, Alfio
Publisher: name: arXiv
Year: 2023
Subjects: subject: Numerical Analysis (math.NA)
subject: Computational Engineering, Finance, and Science (cs.CE)
subject: Biological Physics (physics.bio-ph)
subject: Fluid Dynamics (physics.flu-dyn)
subject: FOS: Mathematics
subject: FOS: Computer and information sciences
subject: FOS: Physical sciences

description: We introduce a multiphysics and geometric multiscale computational model, suitable to describe the hemodynamics of the whole human heart, driven by a four-chamber electromechanical model. We first present a study on the calibration of the biophysically detailed RDQ20 activation model (Regazzoni et al., 2020) that is able to reproduce the physiological range of hemodynamic biomarkers. Then, we demonstrate that the ability of the force generation model to reproduce certain microscale mechanisms, such as the dependence of force on fiber shortening velocity, is crucial to capture the overall physiological mechanical and fluid dynamics macroscale behavior. This motivates the need for using multiscale models with high biophysical fidelity, even when the outputs of interest are relative to the macroscale. We show that the use of a high-fidelity electromechanical model, combined with a detailed calibration process, allows us to achieve remarkable biophysical fidelity in terms of both mechanical and hemodynamic quantities. Indeed, our electromechanical-driven CFD simulations - carried out on an anatomically accurate geometry of the whole heart - provide results that match the cardiac physiology both qualitatively (in terms of flow patterns) and quantitatively (when comparing in silico results with biomarkers acquired in vivo). We consider the pathological case of left bundle branch block, and we investigate the consequences that an electrical abnormality has on cardiac hemodynamics thanks to our multiphysics integrated model. The computational model that we propose can faithfully predict a delay and an increasing wall shear stress in the left ventricle in the pathological condition. The interaction of different physical processes in an integrated framework allows us to faithfully describe and model this pathology, by capturing and reproducing the intrinsic multiphysics nature of the human heart.
Levels of platinum group elements and rare-earth elements in wild mushroom species growing in Poland
Creators: name: Mirosław Mleczek
name: Przemysław Niedzielski
name: Kalač, Pavel
name: Siwulski, Marek
name: Rzymski, Piotr
name: Gąsecka, Monika
Publisher: name: Taylor & Francis
Year: 2016
Subjects: subject: Biophysics
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Physiology
subject: Pharmacology
subject: Biotechnology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Ecology
subject: Developmental Biology
subject: Plant Biology

description: Due to limited data-describing abilities of mushrooms to accumulate platinum group elements (PGEs) and rare-earth elements (REEs), the aim of this study was to determine, by inductively coupled plasma optical emission spectrometry followed by microwave-assisted sample digestion by nitric acid, the content of these elements in 20 mushroom species (10 above ground and 10 growing on wood), mostly edible, collected near a busy trunk road. The highest content of PGEs in above-ground mushroom species was observed in Lepista gilva and Suillus bovinus fruit bodies (0.38 ± 0.05 and 0.37 ± 0.03 mg kg−1 DW, respectively), while in mushrooms growing on wood, the highest content was observed in Pleurotus ostreatus (0.35 ± 0.04 mg kg−1 DW). The mean content of PGEs for both these groups was 0.23 ± 0.08 and 0.26 ± 0.07 mg kg−1 DW, respectively. The highest content of REEs in Suillus luteus and Tricholoma equestra was 5.03 ± 0.50 and 2.18 ± 0.56 mg kg−1 DW, respectively, but within mushrooms growing on wood in Ganoderma applanatum fruiting bodies it was 4.19 ± 0.78 mg kg−1 DW. Mean contents of REEs were 1.39 ± 1.21 and 1.61 ± 0.97 mg kg−1 DW in above-ground species and species growing on wood, respectively. Generally, the group of mushroom species growing on wood was capable of slightly higher accumulation of both REEs and PGEs. No limits have been established for both the groups until now.
Levels of platinum group elements and rare-earth elements in wild mushroom species growing in Poland
Creators: name: Mirosław Mleczek
name: Przemysław Niedzielski
name: Kalač, Pavel
name: Siwulski, Marek
name: Rzymski, Piotr
name: Gąsecka, Monika
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Biophysics
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Physiology
subject: Pharmacology
subject: Biotechnology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Ecology
subject: Developmental Biology
subject: Plant Biology

description: Due to limited data-describing abilities of mushrooms to accumulate platinum group elements (PGEs) and rare-earth elements (REEs), the aim of this study was to determine, by inductively coupled plasma optical emission spectrometry followed by microwave-assisted sample digestion by nitric acid, the content of these elements in 20 mushroom species (10 above ground and 10 growing on wood), mostly edible, collected near a busy trunk road. The highest content of PGEs in above-ground mushroom species was observed in Lepista gilva and Suillus bovinus fruit bodies (0.38 ± 0.05 and 0.37 ± 0.03 mg kg−1 DW, respectively), while in mushrooms growing on wood, the highest content was observed in Pleurotus ostreatus (0.35 ± 0.04 mg kg−1 DW). The mean content of PGEs for both these groups was 0.23 ± 0.08 and 0.26 ± 0.07 mg kg−1 DW, respectively. The highest content of REEs in Suillus luteus and Tricholoma equestra was 5.03 ± 0.50 and 2.18 ± 0.56 mg kg−1 DW, respectively, but within mushrooms growing on wood in Ganoderma applanatum fruiting bodies it was 4.19 ± 0.78 mg kg−1 DW. Mean contents of REEs were 1.39 ± 1.21 and 1.61 ± 0.97 mg kg−1 DW in above-ground species and species growing on wood, respectively. Generally, the group of mushroom species growing on wood was capable of slightly higher accumulation of both REEs and PGEs. No limits have been established for both the groups until now.
Generating Multidimensional Clusters With Support Lines
Creators: name: Fachada, Nuno
name: de Andrade, Diogo
Publisher: name: arXiv
Year: 2023
Subjects: subject: Machine Learning (cs.LG)
subject: Computer Vision and Pattern Recognition (cs.CV)
subject: Programming Languages (cs.PL)
subject: FOS: Computer and information sciences
subject: I.5; I.2.5

description: Synthetic data is essential for assessing clustering techniques, complementing and extending real data, and allowing for more complete coverage of a given problem's space. In turn, synthetic data generators have the potential of creating vast amounts of data -- a crucial activity when real-world data is at premium -- while providing a well-understood generation procedure and an interpretable instrument for methodically investigating cluster analysis algorithms. Here, we present Clugen, a modular procedure for synthetic data generation, capable of creating multidimensional clusters supported by line segments using arbitrary distributions. Clugen is open source, comprehensively unit tested and documented, and is available for the Python, R, Julia, and MATLAB/Octave ecosystems. We demonstrate that our proposal can produce rich and varied results in various dimensions, is fit for use in the assessment of clustering algorithms, and has the potential to be a widely used framework in diverse clustering-related research tasks.
description: The peer-reviewed version of this paper is published in Knowledge-Based Systems at https://doi.org/10.1016/j.knosys.2023.110836. This version is typeset by the author and differs only in pagination and typographical detail
A combination of pharmacophore modeling, atom-based 3D-QSAR, molecular docking and molecular dynamics simulation studies on PDE4 enzyme inhibitors
Creators: name: Naga Srinivas Tripuraneni
name: Azam, Mohammed Afzal
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Biophysics
subject: Biochemistry
subject: Biotechnology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Sociology
subject: FOS: Sociology
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Cancer

description: Phosphodiesterases 4 enzyme is an attractive target for the design of anti-inflammatory and bronchodilator agents. In the present study, pharmacophore and atom-based 3D-QSAR studies were carried out for pyrazolopyridine and quinoline derivatives using Schrödinger suite 2014-3. A four-point pharmacophore model was developed using 74 molecules having pIC50 ranging from 10.1 to 4.5. The best four feature model consists of one hydrogen bond acceptor, two aromatic rings, and one hydrophobic group. The pharmacophore hypothesis yielded a statistically significant 3D-QSAR model, with a high correlation coefficient (R2 = .9949), cross validation coefficient (Q2 = .7291), and Pearson-r (.9107) at six component partial least square factor. The external validation indicated that our QSAR model possessed high predictive power with R2 value of .88. The generated model was further validated by enrichment studies using the decoy test. Molecular docking, free energy calculation, and molecular dynamics (MD) simulation studies have been performed to explore the putative binding modes of these ligands. A 10-ns MD simulation confirmed the docking results of both stability of the 1XMU–ligand complex and the presumed active conformation. Outcomes of the present study provide insight in designing novel molecules with better PDE4 inhibitory activity.
On Composites and Primes
Creators: name: Muhammad, Safaa
Publisher: name: figshare
Year: 2015
Subjects: Uncategorized

description: In this paper, I define a set 'I' which is a set of unique multiples of n that If n(a)≠ n(b), then ∀a(n) ∈ I(a)≠ b(n) ∈ I(b). Then I introduce two concepts, first is the strength of n according to I(n), and second is the cardinality of I(n) for a(n) ∈ I(n) < x. Going from there, I calculate how many composites less than x stepping to how many primes less than x that denoted to π(x).
Polyhydroxyalkanoates – what are the uses? Current challenges and perspectives
Creators: name: Farha Masood
name: Yasin, Tariq
name: Hameed, Abdul
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Science Policy
subject: Developmental Biology
subject: Biological Sciences
subject: Immunology
subject: FOS: Clinical medicine
subject: Ecology
subject: FOS: Biological sciences
subject: Chemistry
subject: Earth and Environmental Sciences
subject: Evolutionary Biology
subject: Engineering

description: Over the past few decades, a considerable attention has been focused on the microbial polyhydroxyalkanoates (PHAs) owing to its multifaceted properties, i.e. biodegradability, biocompatibility, non-toxicity and thermo-plasticity. This article presents a critical review of the foregoing research, current trends and future perspectives on the value added applications of PHAs in the biomedical, environmental and industrial domains of life.
title: Cronica del rey D. Enrique el quarto... por... Diego Enriquez Del Castillo...
Creators: name: de Flores, Josef Miguel
name: Enriquez del Castillo, Diego
Publisher: name: NAKALA - https://nakala.fr (Huma-Num - CNRS)
publisherIdentifier: https://ror.org/04ces3204
publisherIdentifierScheme: ROR
Year: 2020

description: Front.

Auteur pas à la BN
description: Source: bibliothèque patrimoniale Villon (Rouen), fonds Liber, Mt g 467
Covalently assembled resorcin[4]arenes and molecular tweezers: a chiral recognition rationale by NMR
Creators: name: Barretta, Gloria Uccello
name: Balzano, Federica
name: Aiello, Federica
name: Nardelli, Francesca
name: Ciogli, Alessia
name: Calcaterra, Andrea
name: Botta, Bruno
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Genetics
subject: FOS: Biological sciences
subject: Evolutionary Biology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Cancer

description: Chiral diamides and tetramidic resorcin[4]arenes deriving from (R,R)-1,2-diaminocyclohexane and (S,S)-1,2-diphenylethylendiamine, and a valine containing resorcin[4]arene have been compared by NMR in the enantiodiscrimination of mandelic acid. The relevance of cooperation between side arms and external surface of resorcin[4]arene core has been ascertained.
Fine Robotic Manipulation without Force/Torque Sensor
Creators: name: Shan, Shilin
name: Pham, Quang-Cuong
Publisher: name: arXiv
Year: 2023
Subjects: subject: Robotics (cs.RO)
subject: Machine Learning (cs.LG)
subject: FOS: Computer and information sciences

description: Force Sensing and Force Control are essential to many industrial applications. Typically, a 6-axis Force/Torque (F/T) sensor is mounted between the robot's wrist and the end-effector in order to measure the forces and torques exerted by the environment onto the robot (the external wrench). Although a typical 6-axis F/T sensor can provide highly accurate measurements, it is expensive and vulnerable to drift and external impacts. Existing methods aiming at estimating the external wrench using only the robot's internal signals are limited in scope: for example, wrench estimation accuracy was mostly validated in free-space motions and simple contacts as opposed to tasks like assembly that require high-precision force control. Here we present a Neural Network based method and argue that by devoting particular attention to the training data structure, it is possible to accurately estimate the external wrench in a wide range of scenarios based solely on internal signals. As an illustration, we demonstrate a pin insertion experiment with 100-micron clearance and a hand-guiding experiment, both performed without external F/T sensors or joint torque sensors. Our result opens the possibility of equipping the existing 2.7 million industrial robots with Force Sensing and Force Control capabilities without any additional hardware.
description: Accepted to Robotics and Automation Letters (RA-L), 8 pages
Mechanochemical formation of a 1:1 C60: tert-butylcalix[4]azulene supramolecular complex: solid-state NMR and DFT computational studies
Creators: name: Georghiou, Paris E.
name: Celine Schneider
name: Shamov, Grigory
name: Lash, Timothy D.
name: Shofiur Rahman
name: D. Sabrina Giddings
Publisher: name: Taylor & Francis
Year: 2016
Subjects: subject: Biophysics
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Cancer

description: Solid-state NMR data are presented to clearly support the formation of a 1:1 supramolecular complex between C60 and the tetra-tert-butylated analogue of calix[4]azulene by a simple mechanochemical hand-grinding of host and guest in a mortar and pestle. The experimental results are supported by a DFT study.
Encapsulation of fluoride and hydrogen sulfate dimer by polyammonium-functionalised first- and second-generation tripodal: cavity-induced anion encapsulation
Creators: name: Md. Najbul Hoque
name: Utsab Manna
name: Das, Gopal
Publisher: name: Taylor & Francis
Year: 2016
Subjects: subject: Biophysics
subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Evolutionary Biology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology

description: Design, synthesis and complexation with inorganic anions of first (1L) and second (2L) generation tripodal polyamine receptors are reported here. The C3v symmetric second-generation tripodal receptor (2L) possesses large enough cavity to encapsulate larger hydrogen sulfate dimer in a unimolecular capsular fashion [(HSO4)2⊂2]. The dimer is stabilised by (NH)+⋯O type H-bonding and electrostatic interactions between and ammonium group. Water of crystallisation form hybrid anion–water cluster [(HSO4)–(H2O) with ions located outside the cavity. The [(HSO4)–(H2O) cluster and Cl⋯Cl halogen bond play templating role in the supramolecular aggregation of unimolecular capsule [(HSO4)2⊂2]. On the other hand, first-generation receptor (1L) encapsulates only fluoride ion due to its smaller cavity size and thus form unimolecular fluoride complex [F⊂1]. Overall study shows cavity size-induced anion encapsulation. All complexes are well characterised by FT-IR, NMR, TGA, DSC and XRD experiments. Two polyammonium based tripodal receptors (1L and 2L) with varied size and length shows significant anion inclusion (of particular size and shape) through unimolecular capsular complex formation. We also recognized [(HSO4)-(H2O)]44‾ cluster which plays a crucial role in supramolecular aggregation of the unimolecular capsule of 2L.
Mechanochemical formation of a 1:1 C60: tert-butylcalix[4]azulene supramolecular complex: solid-state NMR and DFT computational studies
Creators: name: Georghiou, Paris E.
name: Celine Schneider
name: Shamov, Grigory
name: Lash, Timothy D.
name: Shofiur Rahman
name: D. Sabrina Giddings
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Biophysics
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Cancer

description: Solid-state NMR data are presented to clearly support the formation of a 1:1 supramolecular complex between C60 and the tetra-tert-butylated analogue of calix[4]azulene by a simple mechanochemical hand-grinding of host and guest in a mortar and pestle. The experimental results are supported by a DFT study.
A phenyl imidazole dicarboxylate-based 3D terbium–organic framework for selective sensing of nitrobenzene
Creators: name: Li, Yi-Lin
name: Wang, Jing
name: Shi, Bing-Bing
name: Jinpeng Li
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Biophysics
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Biotechnology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences

description: A novel lanthanide(III)–organic framework, {(Tb(μ3-HPhIDC)(μ2-C2O4)0.5(H2O))·2H2O}n (1) (H3PhIDC = 2-phenyl-1H-imidazole-4,5-dicarboxylic acid) has been solvothermally synthesised and structurally characterised, which exhibits selective detection of nitrobenzene via a photoinduced electron transfer quenching mechanism. The high efficiency, stability and recyclability of 1 make it a potential chemosensor for nitrobenzene.
Encapsulation of fluoride and hydrogen sulfate dimer by polyammonium-functionalised first- and second-generation tripodal: cavity-induced anion encapsulation
Creators: name: Md. Najbul Hoque
name: Utsab Manna
name: Das, Gopal
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Biophysics
subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Evolutionary Biology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology

description: Design, synthesis and complexation with inorganic anions of first (1L) and second (2L) generation tripodal polyamine receptors are reported here. The C3v symmetric second-generation tripodal receptor (2L) possesses large enough cavity to encapsulate larger hydrogen sulfate dimer in a unimolecular capsular fashion [(HSO4)2⊂2]. The dimer is stabilised by (NH)+⋯O type H-bonding and electrostatic interactions between and ammonium group. Water of crystallisation form hybrid anion–water cluster [(HSO4)–(H2O) with ions located outside the cavity. The [(HSO4)–(H2O) cluster and Cl⋯Cl halogen bond play templating role in the supramolecular aggregation of unimolecular capsule [(HSO4)2⊂2]. On the other hand, first-generation receptor (1L) encapsulates only fluoride ion due to its smaller cavity size and thus form unimolecular fluoride complex [F⊂1]. Overall study shows cavity size-induced anion encapsulation. All complexes are well characterised by FT-IR, NMR, TGA, DSC and XRD experiments. Two polyammonium based tripodal receptors (1L and 2L) with varied size and length shows significant anion inclusion (of particular size and shape) through unimolecular capsular complex formation. We also recognized [(HSO4)-(H2O)]44‾ cluster which plays a crucial role in supramolecular aggregation of the unimolecular capsule of 2L.
The regulatory role and mechanism of TRPV3 on apoptosis and inflammation in osteoarthritis
Creators: name: Ghafari, Sahar
name: Moqadami, Amin
name: Khalaj-Kondori, Mohammad
Publisher: name: IfADo - Leibniz Research Centre for Working Environment and Human Factors, Dortmund
Year: 2025
Subjects: osteoarthritis
interleukin-1 beta
apoptosis
inflammation
TRPV3

description: Osteoarthritis (OA) is one of the most common forms of degenerative joint disease characterized by persistent pain, inflammation of the joints, and restricted range of motion among the elderly worldwide. Interleukin-1 beta (IL-1β) is increased in the injured joints and contributes to the OA pathobiology by inducing chondrocyte apoptosis and inflammation. Transient receptor potential (TRP) ion channels have recently been reported as potential players in the modulation of apoptosis and inflammation. Here, we aimed to understand the regulatory role and effect of TRPV3 on apoptosis and inflammation in osteoarthritis by using C28/I2 chondrocyte cells as a model. Chondrocytes were transfected with TRPV3-specific siRNA for 24 hours and then stimulated with IL-1β in vitro. Cell cycle progression and apoptosis were evaluated with flow cytometry. The levels of TRPV3, apoptotic (Bax, Caspase-3, and Bcl-2), and inflammatory (iNOS, COX-2) genes were measured by quantitative real-time polymerase chain reaction (qRT-PCR) and confirmed with western blot. Treatment of the C28/I2 chondrocyte cells with IL-1β resulted in the over-expression of TRPV3, induction of apoptosis, and over-expression of inflammation indices. Knockdown of TRPV3 significantly reduced the expression of Bax and Caspase 3 proapoptotic factors while increasing the expression of the Bcl-2 antiapoptotic factor in the mRNA and protein levels in the IL-1β-stimulated cells. Its knockdown also decreased the expression of the inflammatory factors iNOS and COX-2 in mRNA and protein levels, confirming that TRPV3 knockdown hinders apoptosis and inflammation in IL-1β-stimulated chondrocytes. In conclusion, we demonstrated that si-TRPV3 treatment significantly mitigates IL-1β-related effects on the C28/I2 chondrocyte cells. These findings suggested that TRPV3 could be an effective target for the treatment of OA.
description: EXCLI Journal; 24:Doc325; ISSN 1611-2156
Phase transition in Stabilizer Entropy and efficient purity estimation
Creators: name: Leone, Lorenzo
name: Oliviero, Salvatore F. E.
name: Esposito, Gianluca
name: Hamma, Alioscia
Publisher: name: arXiv
Year: 2023
Subjects: subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: Stabilizer Entropy (SE) quantifies the spread of a state in the basis of Pauli operators. It is a computationally tractable measure of non-stabilizerness and thus a useful resource for quantum computation. SE can be moved around a quantum system, effectively purifying a subsystem from its complex features. We show that there is a phase transition in the residual subsystem SE as a function of the density of non-Clifford resources. This phase transition has important operational consequences: it marks the onset of a subsystem purity estimation protocol that requires $poly(n)exp(t)$ many queries to a circuit containing $t$ non-Clifford gates that prepares the state from a stabilizer state. Then, for $t=O(\log_2 n)$, it estimates the purity with polynomial resources and, for highly entangled states, attains an exponential speed-up over the known state-of-the-art algorithms.
NLP Workbench: Efficient and Extensible Integration of State-of-the-art Text Mining Tools
Creators: name: Yao, Peiran
name: Kosmajac, Matej
name: Waheed, Abeer
name: Guzhva, Kostyantyn
name: Hervieux, Natalie
name: Barbosa, Denilson
Publisher: name: arXiv
Year: 2023
Subjects: subject: Computation and Language (cs.CL)
subject: FOS: Computer and information sciences

description: NLP Workbench is a web-based platform for text mining that allows non-expert users to obtain semantic understanding of large-scale corpora using state-of-the-art text mining models. The platform is built upon latest pre-trained models and open source systems from academia that provide semantic analysis functionalities, including but not limited to entity linking, sentiment analysis, semantic parsing, and relation extraction. Its extensible design enables researchers and developers to smoothly replace an existing model or integrate a new one. To improve efficiency, we employ a microservice architecture that facilitates allocation of acceleration hardware and parallelization of computation. This paper presents the architecture of NLP Workbench and discusses the challenges we faced in designing it. We also discuss diverse use cases of NLP Workbench and the benefits of using it over other approaches. The platform is under active development, with its source code released under the MIT license. A website and a short video demonstrating our platform are also available.
description: Camera-ready version for EACL 2023: System Demonstrations
การประเมินผลการนำนโยบายมาตรการควบคุมโรคสิคุนกุนยาสู่การปฏิบติในชุมชนกรณีศึกษา: อาสาสมัครสาธารณสุขประจำหมู่บ้าน จังหวัดสงขลา
Creators: name: ยอร์น จิระนคร
Publisher: name: สำนักจัดการความรู้ กรมควบคุมโรค กระทรวงสาธารณสุข
Year: 2556
Subjects: มาตรการควบคุมโรคชิคุนกุนยา
อาสาสมัครสาธารฌสุข

description: วารสารควบคุมโรค, 39, 4, 334-344
A PLAC8-containing protein from an endomycorrhizal fungus confers cadmium resistance to yeast cells by interacting with Mlh3p
Creators: name: Abba', Simona
name: Vallino, Marta
name: Daghino, Stefania
name: Vietro, Luigi Di
name: Borriello, Roberto
name: Perotto, Silvia
Publisher: name: figshare
Year: 2015
Subjects: subject: Plant Biology
subject: FOS: Biological sciences

description: admium is a genotoxic pollutant known to target proteins that are involved in DNA repair and in antioxidant defence, altering their functions and ultimately causing mutagenic and carcinogenic effects. We have identified a PLAC8 domain-containing protein, named OmFCR, by a yeast functional screen aimed at identifying genes involved in cadmium resistance in the endomycorrhizal fungus Oidiodendron maius. OmFCR shows a remarkable specificity in mediating cadmium resistance. Both its function and its nuclear localization in yeast strictly depend on the interaction with Mlh3p, a subunit of the mismatch repair (MMR) system. Although proteins belonging to the PLAC8 family are widespread in eukaryotes, they are poorly characterized and their biological role still remains elusive. Our work represents the first report about the potential role of PLAC8 protein as an MMR-associated protein that physically couples DNA lesion recognition by the MMR system to appropriate effectors that affect cell cycle checkpoint pathways. On the basis of cell survival assays and yeast growth curves, we hypothesize that, upon cadmium exposure, OmFCR might promote a higher rate in cell division as compared to control cells.
Different substrates and starter inocula govern microbial community structures in biogas reactors
Creators: name: Preseela Satpathy
name: Steinigeweg, Sven
name: Cypionka, Heribert
name: Engelen, Bert
Publisher: name: Taylor & Francis
Year: 2016
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Biotechnology
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: Cancer
subject: Inorganic Chemistry
subject: FOS: Chemical sciences

description: The influence of different starter inocula on the microbial communities in biogas batch reactors fed with fresh maize and maize silage as substrates was investigated. Molecular biological analysis by Denaturing Gradient Gel Electrophoresis (DGGE) of 16S rRNA gene fragments showed that each inoculum bore specific microbial communities with varying predominant phylotypes. Both, bacterial and archaeal DGGE profiles displayed three distinct communities that developed depending on the type of inoculum. Although maize and silage are similar substrates, different communities dominated the lactate-rich silage compared to lactate-free fresh maize. Cluster analysis of DGGE gels showed the communities of the same substrates to be stable with their respective inoculum. Bacteria-specific DGGE analysis revealed a rich diversity with Firmicutes being predominant. The other abundant phylotypes were Bacteroidetes and Synergistetes. Archaea-specific DGGE analysis displayed less diverse community structures, identifying members of the Methanosarcinales as the dominant methanogens present in all the three biogas digesters. In general, the source of inoculum played a significant role in shaping microbial communities. Adaptability of the inoculum to the substrates fed also influenced community compositions which further impacted the rates of biogas production.
Novel strategies for diagnosing the cause of short-term organic fouling in ultrafiltration
Creators: name: Kim, Hyun-Chul
Publisher: name: Taylor & Francis
Year: 2016
Subjects: subject: Biochemistry
subject: Space Science
subject: 29999 Physical Sciences not elsewhere classified
subject: FOS: Physical sciences
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Molecular Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified

description: The main objective of this study was to demonstrate the usefulness of a multi-strategic approach for identifying the extent and mechanism of fouling in the ultrafiltration (UF) of wastewater effluent organic matter (EfOM). In this study, we combined EfOM fractionation with spectroscopic autopsies for clean and fouled UF membranes. The EfOM fractions were sequentially removed from the wastewater effluent using relatively gentle techniques (neutral pH and no extractions). The residual EfOM samples were then used in UF tests. This work showed that resistance to filtration was partially reduced with the removal of particles (>20 nm), but almost all of the short-term fouling was eliminated with the removal of organic acids, which constitute 22% of the total organic carbon. The membrane autopsies were conducted using attenuated reflectance infrared spectroscopy for the top and bottom fouled membranes, and comparison was made with the infrared spectra of a clean membrane. Hydrophilic base/neutrals were the dominant EfOM constituents at the top of the fouled membranes. Hydrophobic acids were adsorbed onto the pore walls deep inside the membranes, which coincided with the permeability recovery of fouled membranes. The fouling mechanisms were examined by measuring the resistance to filtration as a function of permeate flux using various operational conditions and by investigating the effectiveness of hydraulic and chemical cleaning on the restoration of membrane permeability.
Application of Empirical Rule on Standard Deviation and the Chebyshev’s Theorem Quantitative Aspects of Real Estate Market Studies
Creators: name: Gunawardhana, WHT
Publisher: name: figshare
Year: 2015
Subjects: Uncategorized

description: This a research aticle titled"Application of Empirical Rule on Standard Deviation and the Chebyshev’s Theorem: Quantitative Aspects of Real Estate Market Studies"
Indirect Exchange Interaction Leads to Large Lattice Contribution to Magnetocaloric Entropy Change
Creators: name: Patra, Lokanath
name: Liao, Bolin
Publisher: name: arXiv
Year: 2023
Subjects: subject: Materials Science (cond-mat.mtrl-sci)
subject: FOS: Physical sciences

description: Materials with a large magnetocaloric response are highly desirable for magnetic cooling applications. It is suggested that a strong spin-lattice coupling tends to generate a large magnetocaloric effect, but no microscopic mechanism has been proposed. In this work, we use spin lattice dynamics simulation to examine the lattice contribution to the magnetocaloric entropy change in bcc iron (Fe) and hcp gadolinium (Gd) with exchange interaction parameters determined from ab initio calculations. We find that indirect Ruderman Kittel Kasuya Yosida (RKKY) exchange interaction in hcp Gd leads to longer range spin lattice coupling and more strongly influences the low frequency long wavelength phonons. This results in a higher lattice contribution towards the total magnetocaloric entropy change as compared to bcc Fe with short range direct exchange interactions. Our analysis provides a framework for understanding the magnetocaloric effect in magnetic materials with strong spin lattice couplings. Our finding suggests that long range indirect RKKY type exchange gives rise to a larger lattice contribution to the magnetocaloric entropy change and is, thus, beneficial for magnetocaloric materials.
Different substrates and starter inocula govern microbial community structures in biogas reactors
Creators: name: Preseela Satpathy
name: Steinigeweg, Sven
name: Cypionka, Heribert
name: Engelen, Bert
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Biotechnology
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: Cancer
subject: Inorganic Chemistry
subject: FOS: Chemical sciences

description: The influence of different starter inocula on the microbial communities in biogas batch reactors fed with fresh maize and maize silage as substrates was investigated. Molecular biological analysis by Denaturing Gradient Gel Electrophoresis (DGGE) of 16S rRNA gene fragments showed that each inoculum bore specific microbial communities with varying predominant phylotypes. Both, bacterial and archaeal DGGE profiles displayed three distinct communities that developed depending on the type of inoculum. Although maize and silage are similar substrates, different communities dominated the lactate-rich silage compared to lactate-free fresh maize. Cluster analysis of DGGE gels showed the communities of the same substrates to be stable with their respective inoculum. Bacteria-specific DGGE analysis revealed a rich diversity with Firmicutes being predominant. The other abundant phylotypes were Bacteroidetes and Synergistetes. Archaea-specific DGGE analysis displayed less diverse community structures, identifying members of the Methanosarcinales as the dominant methanogens present in all the three biogas digesters. In general, the source of inoculum played a significant role in shaping microbial communities. Adaptability of the inoculum to the substrates fed also influenced community compositions which further impacted the rates of biogas production.
Autopsy of Ethereum's Post-Merge Reward System
Creators: name: Cortes-Goicoechea, Mikel
name: Mohandas-Daryanani, Tarun
name: Muñoz-Tapia, Jose Luis
name: Bautista-Gomez, Leonardo
Publisher: name: arXiv
Year: 2023
Subjects: subject: Cryptography and Security (cs.CR)
subject: Computer Science and Game Theory (cs.GT)
subject: FOS: Computer and information sciences

description: Like most modern blockchain networks, Ethereum has relied on economic incentives to promote honest participation in the chain's consensus. The distributed character of the platform, together with the "randomness" or "luck" factor that both proof of work (PoW) and proof of stake (PoS) provide when electing the next block proposer, pushed the industry to model and improve the reward system of the system. With several improvements to predict PoW block proposal rewards and to maximize the extractable rewards of the same ones, the ultimate Ethereum's transition to PoS applied in the Paris Hard-Fork, more generally known as "The Merge", has meant a significant modification on the reward system in the platform. In this paper, we aim to break down both theoretically and empirically the new reward system in this post-merge era. We present a highly detailed description of the different rewards and their share among validators' rewards. Ultimately, we offer a study that uses the presented reward model to analyze the performance of the network during this transition.
Observation of dynamical degeneracy splitting for the non-Hermitian skin effect
Creators: name: Wan, Tuo
name: Zhang, Kai
name: Li, Junkai
name: Yang, Zhesen
name: Yang, Zhaoju
Publisher: name: arXiv
Year: 2023
Subjects: subject: Quantum Physics (quant-ph)
subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: Applied Physics (physics.app-ph)
subject: FOS: Physical sciences

description: The non-Hermitian skin effect is a distinctive phenomenon in non-Hermitian systems, which manifests as the anomalous localization of bulk states at the boundary. To understand the physical origin of the non-Hermitian skin effect, a bulk band characterization based on the dynamical degeneracy on an equal frequency contour is proposed, which reflects the strong anisotropy of the spectral function. In this paper, we report the experimental observation of both phenomena in a two-dimensional acoustic crystal, and reveal their remarkable correspondence by performing single-frequency excitation measurements. Our work not only provides a controllable experimental platform for studying the non-Hermitian physics, but also confirms the correspondence between the non-Hermitian skin effect and the dynamical degeneracy splitting, paving a new way to characterize the non-Hermitian skin effect.
description: 14+3 pages, 4+4 figures
Modified Hadronic Interactions and the future of UHECR observations
Creators: name: Ebr, Jan
name: Blazek, Jiri
name: Vícha, Jakub
name: Pierog, Tanguy
name: Santos, Eva
name: Travnicek, Petr
name: Denner, Nikolas
name: Ulrich, Ralf
Publisher: name: Scuola Internazionale Superiore di Studi Avanzati (SISSA)
Year: 2025

description: Data from multiple experiments suggest that the current interaction models used in Monte Carlo simulations do not correctly reproduce the hadronic interactions in air showers produced by ultra-high-energy cosmic rays (UHECR). We have created a large library of UHECR simulations where the interactions at the highest energies are slightly modified in various ways – but always within the constraints of the accelerator data, without any abrupt changes with energy and without assuming any specific mechanism or dramatically new physics at the ultra-high energies. Recent results of the Pierre Auger Observatory indicate a need for a change in the prediction of the models for both the muon content at ground and the depth of the maximum of longitudinal development of the shower. In our parameter space, we find combinations of modifications that are in agreement with this analysis, however a consistent description of UHECR showers remains elusive. Our library however provides a realistic representation of the freedom in the modeling of the hadronic interactions and offers an opportunity to quantify uncertainties of various predictions. This can be particularly valuable for the design of future observatories where hadronic models are often used as input for the prediction of the performance. We demonstrate this powerful capability on several selected examples.
Additional file 2 of Trends in the epidemiology of young-onset colorectal cancer: a worldwide systematic review
Creators: name: Din, Khalid Saad El
name: Loree, Jonathan M.
name: Sayre, Eric C.
name: Gill, Sharlene
name: Brown, Carl J.
name: Dau, Hallie
name: Vera, Mary A. De
Publisher: name: figshare
Year: 2020
Subjects: subject: Medicine
subject: Biotechnology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Cancer
subject: Science Policy
subject: 111714 Mental Health
subject: FOS: Health sciences
subject: Computational Biology

description: Additional file 2: Table S1. Database Search Strategy
Apply Distributed CNN on Genomics to accelerate Transcription-Factor TAL1 Motif Prediction
Creators: name: Assali, Tasnim
name: Ayoub, Zayneb Trabelsi
name: Ouni, Sofiane
Publisher: name: arXiv
Year: 2024
Subjects: subject: Neural and Evolutionary Computing (cs.NE)
subject: FOS: Computer and information sciences

description: Big Data works perfectly along with Deep learning to extract knowledge from a huge amount of data. However, this processing could take a lot of training time. Genomics is a Big Data science with high dimensionality. It relies on deep learning to solve complicated problems in certain diseases like cancer by using different DNA information such as the transcription factor. TAL1 is a transcription factor that is essential for the development of hematopoiesis and of the vascular system. In this paper, we highlight the potential of deep learning in the field of genomics and its challenges such as the training time that takes hours, weeks, and in some cases months. Therefore, we propose to apply a distributed deep learning implementation based on Convolutional Neural Networks (CNN) that showed good results in decreasing the training time and enhancing the accuracy performance with 95% by using multiple GPU and TPU as accelerators. We proved the efficiency of using a distributed strategy based on data-parallelism in predicting the transcription-factor TAL1 motif faster.
description: 2022 11th International Conference on Computer Technologies and Development (TechDev), Barcelona, Spain, 2022
El testamento de Cristo: Digital edition
Creators: name: Leblanc Elina
Publisher: name: Zenodo
Year: 2024
Subjects: Spanish literature
Digital edition
XML-TEI

description: Digital edition of a Spanish pliego de cordel, published by the Andalusian printer José María Moreno (19th c.). It contains the XML-TEI file of the edition, as well as the files that led to this edition, i.e. the digital facsimiles (raw and retouched), and the transcription produced by the OCR tool Transkribus (PAGE-XML). This digital edition is a part of the research project Desenrollando el cordel / Untangling the cordel / Démêler le cordel (2020-2024), led by professor Constance Carta at the University of Geneva and supported by the philanthropic Sandoz-Monique de Meuron Family Foundation.
Novel strategies for diagnosing the cause of short-term organic fouling in ultrafiltration
Creators: name: Kim, Hyun-Chul
Publisher: name: Taylor & Francis
Year: 2015
Subjects: subject: Biochemistry
subject: Space Science
subject: 29999 Physical Sciences not elsewhere classified
subject: FOS: Physical sciences
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Molecular Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified

description: The main objective of this study was to demonstrate the usefulness of a multi-strategic approach for identifying the extent and mechanism of fouling in the ultrafiltration (UF) of wastewater effluent organic matter (EfOM). In this study, we combined EfOM fractionation with spectroscopic autopsies for clean and fouled UF membranes. The EfOM fractions were sequentially removed from the wastewater effluent using relatively gentle techniques (neutral pH and no extractions). The residual EfOM samples were then used in UF tests. This work showed that resistance to filtration was partially reduced with the removal of particles (>20 nm), but almost all of the short-term fouling was eliminated with the removal of organic acids, which constitute 22% of the total organic carbon. The membrane autopsies were conducted using attenuated reflectance infrared spectroscopy for the top and bottom fouled membranes, and comparison was made with the infrared spectra of a clean membrane. Hydrophilic base/neutrals were the dominant EfOM constituents at the top of the fouled membranes. Hydrophobic acids were adsorbed onto the pore walls deep inside the membranes, which coincided with the permeability recovery of fouled membranes. The fouling mechanisms were examined by measuring the resistance to filtration as a function of permeate flux using various operational conditions and by investigating the effectiveness of hydraulic and chemical cleaning on the restoration of membrane permeability.
GiveMeLabeledIssues: An Open Source Issue Recommendation System
Creators: name: Vargovich, Joseph
name: Santos, Fabio
name: Penney, Jacob
name: Gerosa, Marco A.
name: Steinmacher, Igor
Publisher: name: arXiv
Year: 2023
Subjects: subject: Software Engineering (cs.SE)
subject: Machine Learning (cs.LG)
subject: FOS: Computer and information sciences

description: Developers often struggle to navigate an Open Source Software (OSS) project's issue-tracking system and find a suitable task. Proper issue labeling can aid task selection, but current tools are limited to classifying the issues according to their type (e.g., bug, question, good first issue, feature, etc.). In contrast, this paper presents a tool (GiveMeLabeledIssues) that mines project repositories and labels issues based on the skills required to solve them. We leverage the domain of the APIs involved in the solution (e.g., User Interface (UI), Test, Databases (DB), etc.) as a proxy for the required skills. GiveMeLabeledIssues facilitates matching developers' skills to tasks, reducing the burden on project maintainers. The tool obtained a precision of 83.9% when predicting the API domains involved in the issues. The replication package contains instructions on executing the tool and including new projects. A demo video is available at https://www.youtube.com/watch?v=ic2quUue7i8
description: MSR Data and Tool Showcase 2023