cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Understanding the co-evolutionary molecular mechanisms of resistance in the HIV-1 Gag and protease
Creators: name: Marie, Veronna
name: Gordon, Michelle
Publisher: name: Taylor & Francis
Year: 2021
Subjects: subject: Biophysics
subject: Biochemistry
subject: 29999 Physical Sciences not elsewhere classified
subject: FOS: Physical sciences
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Molecular Biology
subject: Pharmacology
subject: Biotechnology
subject: Evolutionary Biology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Cancer
subject: Hematology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: 60506 Virology
subject: Computational Biology

description: Due to high human immunodeficiency virus type 1 (HIV-1) subtype C infections coupled with increasing antiretroviral treatment failure, the elucidation of complex drug resistance mutational patterns arising through protein co-evolution is required. Despite the inclusion of potent protease inhibitors Lopinavir (LPV) and Darunavir (DRV) in second- and third-line therapies, many patients still fail treatment due to the accumulation of mutations in protease (PR) and recently, Gag. To understand the co-evolutionary molecular mechanisms of resistance in the HIV-1 PR and Gag, we performed 100 ns molecular dynamic simulations on multidrug resistant PR’s when bound to LPV, DRV or a mutated A431V NC|p1 Gag cleavage site (CS). Here we showed that distinct changes in PR’s active site, flap and elbow regions due to several PR resistance mutations (L10F, M46I, I54V, L76V, V82A) were found to alter LPV and DRV drug binding. However, binding was significantly exacerbated when the mutant PRs were bound to the NC|p1 Gag CS. Although A431V was shown to coordinate several residues in PR, the L76V PR mutation was found to have a significant role in substrate recognition. Consequently, a greater binding affinity was observed when the mutated substrate was bound to an L76V-inclusive PR mutant (Gbind: −62.46 ± 5.75 kcal/mol) than without (Gbind: −50.34 ± 6.28 kcal/mol). These data showed that the co-selection of resistance mutations in the enzyme and substrate can simultaneously constrict regions in PR’s active site whilst flexing the flaps to allow flexible movement of the substrate and multiple, complex mechanisms of resistance to occur. Communicated by Ramaswamy H. Sarma
Flotacja łupka miedzionośnego w obecności spieniacza i polifosforanu sodu lub krzemianu sodu
Creators: name: Kliszowska, Klaudia
name: Drzymała, Jan
Publisher: name: Wydział Geoinżynierii, Górnictwa i Geologii, Politechnika Wrocławska, Wrocław / Faculty of Geoengineering, Mining and Geology, Wrocław University of Science and Technology, Wrocław
Year: 2018

description: Łupek miedzionośny IV, Ratajczak T., Drzymała J. (red.), WGGG PWr, Wrocław, ISBN 978-83-946706-7-2
Interaction Between HII Region and AFGL333-Ridge: Implications to the Star Formation Scenario
Creators: name: Nakano, Makoto
name: Soejima, Takashi
name: Chibueze, James O.
name: Nagayama, Takumi
name: Omodaka, Toshihiro
name: Handa, Toshihiro
name: Sunada, Kazuyuki
name: Kamezaki, Tatsuya
name: Burns, Ross A.
Publisher: name: arXiv
Year: 2016
Subjects: subject: Astrophysics of Galaxies (astro-ph.GA)
subject: Solar and Stellar Astrophysics (astro-ph.SR)
subject: FOS: Physical sciences

description: We investigated the star formation activities in the AFGL333 region, which is in the vicinity of the W4 expanding bubble, by conducting NH3 (1,1), (2,2), and (3,3) mapping observations with the 45 m Nobeyama Radio Telescope at an angular resolution of 75". The morphology of the NH3 (1,1) map shows a bow-shape structure with the size of 2.0 x 0.6 pc as seen in the dust continuum. At the interface between the W4 bubble and the dense NH3 cloud, the compact HII region G134.2+0.8, associated with IRAS02245+6115, is located. Interestingly, just north and south of G134.2+0.8 we found NH3 emission exhibiting large velocity widths of ~ 2.8 km/s, compared to 1.8 km/s at the other positions. As the possibility of mechanical energy injection through the activity of YSO(s) is low, we considered the origin of the large turbulent gas motion as indication of interaction between the compact HII region and the periphery of the dense molecular cloud. We also found expanding motion of the CO emission associated with G134.2+0.8. The overall structure of the AFGL333-Ridge might have been formed by the expanding bubble of W4. However, the small velocity widths observed west of IRAS02245+6115, around the center of the dense molecular cloud, suggest that interaction with the compact HII region is limited. Therefore the YSOs (dominantly Class 0/I) in the core of the AFGL333-Ridge dense molecular cloud most likely formed in quiescent mode. As has been previously suggested for the large scale star formation in the W3 giant molecular cloud, our results show an apparent coexistence of induced and quiescent star formation in this region. It appears that star formation in the AFGL333 region has proceeded without significant external triggers, but accompanying stellar feedback environment.
description: 27 pages, 15 figures, 3 tables, accepted for publication in PASJ
MPEC 2024-B162 : 2024 BN3
Creators: name: Minor Planet Center Staff
Publisher: name: The Minor Planet Center
Year: 2024
Subjects: subject: Small Solar System bodies
valueUri: http://astrothesaurus.org/uat/1469
subject: 2024 BN3

description: The Minor Planet Electronic Circulars contain information on unusual minor planets, routine data on comets and natural satellites, and occasional editorial announcements.  They are published on behalf of Division F of the International Astronomical Union by the Minor Planet Center, Smithsonian Astrophysical Observatory, Cambridge, MA 02138, U.S.A.
In silico approach to target PI3K/Akt/mTOR axis by selected Olea europaea phenols in PIK3CA mutant colorectal cancer
Creators: name: Sain, Arindam
name: Kandasamy, Thirukumaran
name: Naskar, Debdut
Publisher: name: Taylor & Francis
Year: 2021
Subjects: subject: Biophysics
subject: Biochemistry
subject: Medicine
subject: Molecular Biology
subject: Pharmacology
subject: Biotechnology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
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: Worldwide disease burden of colorectal cancer (CRC) increasing alarmingly, but a suitable therapeutic strategy is not available yet. Abnormal activation of the PI3K/Akt/mTOR signalling because of mutation in the PIK3CA gene is a driving force behind CRC development. Therefore, this study aimed to comprehensively characterise the potential of phenolic compounds from Olea europaea against the PI3K/Akt/mTOR axis by using in silico methodologies. Molecular docking was utilised to study key interactions between phenolic compounds of O. europaea and target proteins PI3K, Akt, mTOR with reference to known inhibitor of target. Drug likeness and ADME/T properties of selected phenols were explored by online tools. Dynamic properties and binding free energy of target-ligand interactions were studied by molecular dynamic simulation and MM-PBSA method respectively. Molecular docking revealed apigenin, luteolin, pinoresinol, oleuropein, and oleuropein aglycone as the top five phenolic compounds which showed comparable/better binding affinity than the known inhibitor of the respective target protein. Drug likeness and ADME/T properties were employed to select the top three phenols namely, apigenin, luteolin, and pinoresinol which shown to bind stably to the catalytic cleft of target proteins as confirmed by molecular dynamics simulations. Therefore, Apigenin, luteolin, and pinoresinol have the potential to be used as the non-toxic alternative to synthetic chemical inhibitors generally used in CRC treatment as they can target PI3K/Akt/mTOR axis. Particularly, pinoresinol showed great potential as dual PI3K/mTOR inhibitor. However, this study needs to be complemented with future in vitro and in vivo studies to provide an alternative way of CRC treatment. Communicated by Ramaswamy H. Sarma
Flotacja łupka i bornitu z LGOM w obecności spieniacza oraz wybranych reagentów modyfikujących
Creators: name: Swebodzińska, Alicja
name: Drzymała, Jan
Publisher: name: Wydział Geoinżynierii, Górnictwa i Geologii, Politechnika Wrocławska, Wrocław / Faculty of Geoengineering, Mining and Geology, Wrocław University of Science and Technology, Wrocław
Year: 2018

description: Łupek miedzionośny IV, Ratajczak T., Drzymała J. (red.), WGGG PWr, Wrocław, ISBN 978-83-946706-7-2
Isogeometric Simulation of Lorentz Detuning in Superconducting Accelerator Cavities
Creators: name: Corno, Jacopo
name: de Falco, Carlo
name: De Gersem, Herbert
name: Schöps, Sebastian
Publisher: name: arXiv
Year: 2016
Subjects: subject: Numerical Analysis (math.NA)
subject: Computational Physics (physics.comp-ph)
subject: FOS: Mathematics
subject: FOS: Physical sciences
subject: G.1.8; F.2.1; J.2
subject: 78A40, 74F15, 65N30, 65N25

description: Cavities in linear accelerators suffer from eigenfrequency shifts due to mechanical deformation caused by the electromagnetic radiation pressure, a phenomenon known as Lorentz detuning. Estimating the frequency shift up to the needed accuracy by means of standard Finite Element Methods, is a complex task due to the non exact representation of the geometry and due to the necessity for mesh refinement when using low order basis functions. In this paper, we use Isogeometric Analysis for discretising both mechanical deformations and electromagnetic fields in a coupled multiphysics simulation approach. The combined high-order approximation of both leads to high accuracies at a substantially lower computational cost.
Selektywna flotacja łupka miedzionośnego z mieszaniny z kwarcem w zależności od stężenia soli i rodzaju urządzenia flotacyjnego
Creators: name: Papmel, Karolina J.
name: Ratajczak, Tomasz
Publisher: name: Wydział Geoinżynierii, Górnictwa i Geologii, Politechnika Wrocławska, Wrocław / Faculty of Geoengineering, Mining and Geology, Wrocław University of Science and Technology, Wrocław
Year: 2018

description: Łupek miedzionośny IV, Ratajczak T., Drzymała J. (red.), WGGG PWr, Wrocław, ISBN 978-83-946706-7-2
Watching the coherent birth of polaron pairs in conjugated polymers
Creators: name: De Sio, Antonietta
name: Troiani, Filippo
name: Maiuri, Margherita
name: Réhault, Julien
name: Sommer, Ephraim
name: Lim, James
name: Huelga, Susana F.
name: Plenio, Martin B.
name: Rozzi, Carlo Andrea
name: Cerullo, Giulio
name: Molinari, Elisa
name: Lienau, Christoph
Publisher: name: arXiv
Year: 2016
Subjects: subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: Soft Condensed Matter (cond-mat.soft)
subject: Chemical Physics (physics.chem-ph)
subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: Organic semiconductors have the remarkable property that their optical excitation not only generates charge-neutral electron-hole pairs (excitons) but also charge-separated polaron pairs with high yield. The microscopic mechanisms underlying this charge separation have been debated for many years. Here we use ultrafast two-dimensional electronic spectroscopy to study the dynamics of polaron pair formation in a prototypical polymer thin film on a sub-20-fs time scale. We observe multi-period peak oscillations persisting for up to about 1 ps as distinct signatures of vibronic quantum coherence at room temperature. The measured two-dimensional spectra show pronounced peak splittings revealing that the elementary optical excitations of this polymer are hybridized exciton-polaron-pairs, strongly coupled to a dominant underdamped vibrational mode. Coherent vibronic coupling induces ultrafast polaron pair formation, accelerates the charge separation dynamics and makes it insensitive to disorder. These findings open up new perspectives for tailoring light-to-current conversion in organic materials.
Effect of catchment shape on runoff routing
Creators: name: Koay, Raymond A. F. .
Publisher: name: Monash University
Year: 2022

description: This thesis was scanned from the print manuscript for digital preservation and is copyright the author.
 Researchers can access this thesis by asking their local university, institution or public library to
 make a request on their behalf. Monash staff and postgraduate students can use the link in the References field.
Magnetizability of the relativistic hydrogenlike atom in an arbitrary discrete energy eigenstate: Application of the Sturmian expansion of the generalized Dirac-Coulomb Green function
Creators: name: Stefańska, Patrycja
Publisher: name: arXiv
Year: 2016
Subjects: subject: Atomic Physics (physics.atom-ph)
subject: FOS: Physical sciences

description: The Sturmian expansion of the generalized Dirac--Coulomb Green function [R.\/~Szmytkowski, J.\ Phys.\ B \textbf{30}, 825 (1997); \textbf{30}, 2747(E) (1997)] is exploited to derive a closed-form expression for the magnetizability of the relativistic one-electron atom in an arbitrary discrete state, with a point-like, spinless and motionless nucleus of charge $Ze$. The result has the form of a double finite sum involving the generalized hypergeometric functions ${}_3F_2$ of the unit argument. Our general expression agrees with formulas obtained analytically earlier by other authors for some particular states of the atom. We present also numerical values of the magnetizability for some excited states of selected hydrogenlike ions with $1 \leqslant Z \leqslant 137$ and compare them with data available in the literature.
description: 2 tables
Human prion protein: exploring the thermodynamic stability and structural dynamics of its pathogenic mutants
Creators: name: Halder, Puspita
name: Mitra, Pralay
Publisher: name: Taylor & Francis
Year: 2021
Subjects: subject: Biophysics
subject: Biochemistry
subject: 29999 Physical Sciences not elsewhere classified
subject: FOS: Physical sciences
subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Biotechnology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Cancer

description: Human familial prion diseases are known to be associated with different single-point mutants of the gene coding for prion protein with a primary focus at several locations of the globular domain. We have identified 12 different single-point pathogenic mutants of human prion protein (HuPrP) with the help of extensive perturbations/mutation technique at multiple locations of HuPrP sequence related to potentiality towards conformational disorders. Among these, some of the mutants include pathogenic variants that corroborate well with the literature reported proteins while majority include some unique single-point mutants that are either not explicitly studied early or studied for variants with different residues at the specific position. Primarily, our study sheds light on the unfolding mechanism of the above mentioned mutants in depth. Besides, we could identify some mutants under investigation that demonstrates not only unfolding of the helical structures but also extension and generation of the β-sheet structures and or simultaneously have highly exposed hydrophobic surface which is assumed to be linked with the production of aggregate/fibril structures of the prion protein. Among the identified mutants, Q212E needs special attention due to its maximum exposure of hydrophobic core towards solvent and E200Q is found to be important due to its maximum extent of β-content. We are also able to identify different respective structural conformations of the proteins according to their degree of structural unfolding and those conformations can be extracted and further studied in detail. Communicated by Ramaswamy H. Sarma
Statistical Mechanics of On-line Ensemble Teacher Learning through a Novel Perceptron Learning Rule
Creators: name: Hara, Kazuyuki
name: Miyoshi, Seiji
Publisher: name: arXiv
Year: 2016
Subjects: subject: Disordered Systems and Neural Networks (cond-mat.dis-nn)
subject: FOS: Physical sciences

description: In ensemble teacher learning, ensemble teachers have only uncertain information about the true teacher, and this information is given by an ensemble consisting of an infinite number of ensemble teachers whose variety is sufficiently rich. In this learning, a student learns from an ensemble teacher that is iteratively selected randomly from a pool of many ensemble teachers. An interesting point of ensemble teacher learning is the asymptotic behavior of the student to approach the true teacher by learning from ensemble teachers. The student performance is improved by using the Hebbian learning rule in the learning. However, the perceptron learning rule cannot improve the student performance. On the other hand, we proposed a perceptron learning rule with a margin. This learning rule is identical to the perceptron learning rule when the margin is zero and identical to the Hebbian learning rule when the margin is infinity. Thus, this rule connects the perceptron learning rule and the Hebbian learning rule continuously through the size of the margin. Using this rule, we study changes in the learning behavior from the perceptron learning rule to the Hebbian learning rule by considering several margin sizes. From the results, we show that by setting a margin of kappa > 0, the effect of an ensemble appears and becomes significant when a larger margin kappa is used.
description: 12 pages, 5 figures. Journal of Physical Society of Japan, vol. 81, (2012) 064002
Cavity polaritons with Rydberg blockade and long-range interactions
Creators: name: Litinskaya, Marina
name: Tignone, Edoardo
name: Pupillo, Guido
Publisher: name: arXiv
Year: 2016
Subjects: subject: Quantum Physics (quant-ph)
subject: Atomic Physics (physics.atom-ph)
subject: FOS: Physical sciences

description: We study interactions between polaritons, arising when photons strongly couple to collective excitations in an array of two-level atoms trapped in an optical lattice inside a cavity. We consider two types of interactions between atoms: Dipolar forces and atomic saturability, which ranges from hard-core repulsion to Rydberg blockade. We show that, in spite of the underlying repulsion in the subsystem of atomic excitations, saturability induces a broadband bunching of photons for two-polariton scattering states. We interpret this bunching as a result of interference, and trace it back to the mismatch of the quantization volumes for atomic excitations and photons. We examine also bound bipolaritonic states: These include states created by dipolar forces, as well as a gap bipolariton, which forms solely due to saturability effects in the atomic transition. Both types of bound states exhibit strong bunching in the photonic component. We discuss the dependence of bunching on experimentally relevant parameters.
Structure prediction and discovery of inhibitors against phosphopantothenoyl cysteine synthetase of Acinetobacter baumannii
Creators: name: Gupta, Akshita
name: Vijayan, Viswanathan
name: Pant, Pradeep
name: Kaur, Punit
name: Singh, Tej P.
name: Sharma, Pradeep
name: Sharma, Sujata
Publisher: name: Taylor & Francis
Year: 2021
Subjects: subject: Biophysics
subject: Biochemistry
subject: 29999 Physical Sciences not elsewhere classified
subject: FOS: Physical sciences
subject: Medicine
subject: Cell Biology
subject: Pharmacology
subject: Biotechnology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Acinetobacter baumannii is an extremely dangerous multidrug-resistant (MDR) gram-negative pathogen which poses a serious life-threatening risk in immunocompromised patients. Phosphopantothenoyl cysteine synthetase (PPCS) catalyzes the formation of an amide bond between L-cysteine and phosphopantothenic acid (PPA) to form 4′- Phosphopantothenoylcysteine during Coenzyme A (CoA) biosynthesis. CoA is a crucial cofactor for cellular survival and inhibiting its synthesis will result in cell death. Bacterial PPCS differs from eukaryotic PPCS in a number of ways like it exists as a C-terminal domain of a PPCDC/PPCS fusion protein whereas eukaryotic PPCS exists as an independent protein. This difference makes it an attractive drug target. For which a conventional iterative approach of SBDD (structure-based drug design) was used, which began with three-dimensional structure prediction of AbPPCS using PHYRE 2.0. A database of FDA-approved compounds (Drug Bank) was then screened against the target of interest by means of docking score and glide energy, leading to the identification of 6 prominent drug candidates. The shortlisted 6 molecules were further subjected to all-atom MD simulation studies in explicit-solvent conditions (using AMBER force field). The MD simulation studies revealed that the ligands DB65103, DB449108 and DB443210, maintained several H-bonds with intense van der Waals contacts at the active site of the protein with high binding free energies: −11.42 kcal/mol, −10.49 kcal/mol and −10.98 kcal/mol, respectively, calculated via MM-PBSA method. Overall, binding of these compounds at the active site was found to be the most stable and robust highlighting the potential of these compounds to serve as antibacterials. Communicated by Ramaswamy H. Sarma
Kinetyka flokulacji ziarn łupka miedzionośnego w wodzie oraz w roztworze soli
Creators: name: Węgrzyn, Marcin
name: Ratajczak, Tomasz
Publisher: name: Wydział Geoinżynierii, Górnictwa i Geologii, Politechnika Wrocławska, Wrocław / Faculty of Geoengineering, Mining and Geology, Wrocław University of Science and Technology, Wrocław
Year: 2018

description: Łupek miedzionośny IV, Ratajczak T., Drzymała J. (red.), WGGG PWr, Wrocław, ISBN 978-83-946706-7-2
Involutive Heegaard Floer homology and rational cuspidal curves
Creators: name: Borodzik, Maciej
name: Hom, Jennifer
Publisher: name: arXiv
Year: 2016
Subjects: subject: Geometric Topology (math.GT)
subject: Algebraic Geometry (math.AG)
subject: FOS: Mathematics

description: We use invariants of Hendricks and Manolescu coming from involutive Heegaard Floer theory to find constraints on possible configurations of singular points of a rational cuspidal curve of odd degree in the projective plane. We show that the results do not carry over to rational cuspidal curves of even degree.
description: Appendix by Andrzej Schinzel. 31 pages
Principles of Mindfulness of Stepping into Moral Relationships in the Workplace
Creators: name: Ing-Orn Tanphan
Publisher: name: Faculty of Management Science Nakhon Pathom Rajabhat University.
Year: 2023
Subjects: relationship, work
organization management

description: Journal of Management Science Nakhon Pathom Rajabhat University, 10, 1, 67-75
Revista Multidisciplinaria de Investigación (REMI)
Creators: name: Centro De Investigación Multidisciplinaria (CIMU)
Publisher: name: Zenodo
Year: 2023
Subjects: Ciencias Sociales, Ingeniería y Arquitectura, Economía, Historia, Educación

description: Revista Multidisciplinaria de Investigación (REMI) es una revista científica que nace en el año 2022, elaborada en la Facultad Multidisciplinaria de Occidente, de la Universidad de El Salvador, y qué forma parte del Centro de Investigación Multidisciplinaria (CIMU-FMOcc).
 La REMI, publica trabajos académicos, productos de investigaciones científicas, estados del arte, ensayos académicos y otros trabajos, para la discusión y debates de problemáticas de diversos campos, de ahí el carácter multidisciplinario que distingue a la publicación.
 La REMI, pretende contribuir, desde el ámbito académico, a la discusión de problemáticas de carácter multidisciplinar a nivel regional, nacional e internacional, convergiendo en una comunidad de conocimiento que aporte, con perspectiva científica y rigor académico, a los debates actuales y potenciales de los entornos mencionados.
 La REMI aspira lograr ser una revista de reconocimiento académico nacional e internacional, a partir de ir incorporando los criterios de calidad que distinguen una revista científica, y qué son requeridos por los diversos indexadores, para asignar mayor impacto académico y difusión nacional e internacional. El idioma utilizado en la revista es el castellano, sin embargo, se admitirán trabajos en inglés y portugués.
Odporność łupka miedzionośnego na szok termiczny
Creators: name: Muszyński, Paweł
name: Drzymała, Jan
Publisher: name: Wydział Geoinżynierii, Górnictwa i Geologii, Politechnika Wrocławska, Wrocław / Faculty of Geoengineering, Mining and Geology, Wrocław University of Science and Technology, Wrocław
Year: 2018

description: Łupek miedzionośny IV, Ratajczak T., Drzymała J. (red.), WGGG PWr, Wrocław, ISBN 978-83-946706-7-2
Effect of spot heating with an overload on fatigue crack growth
Creators: name: Chen, B. D. .
Publisher: name: Monash University
Year: 2022

description: This thesis was scanned from the print manuscript for digital preservation and is copyright the author.
 Researchers can access this thesis by asking their local university, institution or public library to
 make a request on their behalf. Monash staff and postgraduate students can use the link in the References field.
The radiative efficiency of relativistic jet and wind: A case study of GRB 070110
Creators: name: Du, Shuang
name: Lü, Hou-Jun
name: Zhong, Shu-Qing
name: Liang, En-Wei
Publisher: name: arXiv
Year: 2016
Subjects: subject: High Energy Astrophysical Phenomena (astro-ph.HE)
subject: FOS: Physical sciences

description: A rapidly spinning, strongly magnetized neutron star is invoked as the central engine for some Gamma-ray bursts (GRBs), especially, the $"$internal plateau$"$ feature of X-ray afterglow. However, for these $"$internal plateau$"$ GRBs, how to produce their prompt emission remains an open question. Two different physical process have been proposed in the literature, (1) a new-born neutron star is surrounded by a hyper-accreting and neutrino cooling disk, the GRB jet can be powered by neutrino annihilation aligning the spin axis; (2) a differentially rotating millisecond pulsar was formed due to different angular velocity between the interior core and outer shell parts of the neutron star, which can power an episodic GRB jet. In this paper, by analyzing the data of one peculiar GRB 070110 (with internal plateau), we try to test which model being favored. By deriving the physical parameters of magnetar with observational data, the parameter regime for initial period ($P_{0\rm }$) and surface polar cap magnetic field ($B_{\rm p}$) of the central NS are $(0.96\sim 1.2 )~\rm ms$ and $(2.4\sim 3.7)\times 10^{14}~\rm G$, respectively. The radiative efficiency of prompt emission is about $η_γ \sim 6\%$. However, the radiative efficiency of internal plateau ($η_{\rm X}$) is larger than $31\%$ assuming the $M_{\rm NS}\sim1.4 M_{\odot}$ and $P_{0\rm }\sim1.2 ~\rm ms$. The clear difference between the radiation efficiencies of prompt emission and internal plateau implies that they maybe originated from different components (e.g. prompt emission from the relativistic jet powered by neutrino annihilation, while the internal plateau from the magnetic outflow wind).
description: 5 pages, 2 figures. 1 Table, Accepted for publication in MNRAS
Drug repurposing based novel anti-leishmanial drug screening using in-silico and in-vitro approaches
Creators: name: Rai, Praveen
name: Arya, Hemant
name: Saha, Satabdi
name: Kumar, Diwakar
name: Bhatt, Tarun Kumar
Publisher: name: Taylor & Francis
Year: 2021
Subjects: subject: Biochemistry
subject: 29999 Physical Sciences not elsewhere classified
subject: FOS: Physical sciences
subject: Medicine
subject: Pharmacology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
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: Visceral leishmaniasis is a neglected tropical disease and is mainly caused by L. donovani in the Indian subcontinent. The mitochondria genome replication in Leishmania spp. is having a very specific mechanism, and it is initiated by a key enzyme called mitochondrial primase. This enzyme is essential for the onset of the replication process and growth of the parasite. Therefore, we focused on the primase protein as a potential therapeutic target for combating leishmaniasis diseases. We started our studies molecular modeling and followed by docking of the FDA-approved drug library into the binding site of the primase protein. The top 30 selected compounds were subjected for molecular dynamics studies. Also, the target protein was cloned, purified, and tested experimentally (primase activity assays and inhibition assays). Some compounds were very effective against the Leishmania cell culture. All these approaches helped us to identify few possible novel anti-leishmanial drugs such as Pioglitazone and Mupirocin. These drugs are effectively involved in inhibiting the promastigote of L. donovani, and it can be utilized in the next level of clinical trials. Communicated by Ramaswamy H. Sarma
The relationship between whole-grain intake and measures of cognitive decline, mood, and anxiety: A systematic review
Creators: name: Ross, Alastair
name: Shertukde, Shruti P.
name: Staffier, Kara Livingston
name: Chung, Mei
name: Jacques, Paul F.
name: McKeown, Nicola M.
Publisher: name: AgResearch
Year: 2023
Subjects: Nutritional science
Nutritional epidemiology
Public health nutrition

description: Greater intake of whole grains, compared to refined grains, is consistently associated with a reduced risk of cardiovascular disease and type 2 diabetes, both of which are associated with cognitive decline. To better understand the relationship between whole-grain intake, cognition, mood, and anxiety, a systematic review was conducted to synthesize available evidence linking whole grains to these outcomes. Four electronic databases were searched from inception to August 2021 for potentially relevant observational and interventional studies. Risk of bias (RoB) assessments were performed using the newly developed Nutrition Quality Evaluation Strengthening Tools, and the Grades of Recommendation, Assessment, Development, and Evaluation approach was used to determine the strength of evidence for each outcome. In total, 23 studies [4 randomized controlled trials (RCTs) and 19 observational studies] met the predefined eligibility criteria. Of these,12 studies included analysis of whole-grain intake and cognitive decline, 9 included mood outcomes, and 2 included both cognition and mood outcomes. The overall evidence for an association between whole-grain intake and cognition is inconclusive. With respect to mood outcomes, evidence from RCTs prospective cohort and case-control studies suggest that higher intake is linked to improved outcomes for mood and depression although the evidence is mixed for cross-sectional studies. Reporting of whole-grain intake fell short of suggested standards, and the strength of available evidence was low or very low for all outcomes. A high RoB toward studies reporting results was also noted, complicating both the interpretation of some studies and the combined evidence. Of note, few well-designed RCTs assessing the effect of whole-grain intake on measures of cognition, mood, and anxiety were identified, highlighting the need for more studies in this area. The available, although limited, evidence suggests that greater whole-grain intake is associated with better mood and anxiety-related scores and is inconclusive regarding cognitive outcomes. PROSPERO registration: CRD42021266355
Modeling peer and external influence in online social networks
Creators: name: Piškorec, Matija
name: Antulov-Fantulin, Nino
name: Miholić, Iva
name: Šmuc, Tomislav
name: Šikić, Mile
Publisher: name: arXiv
Year: 2016
Subjects: subject: Social and Information Networks (cs.SI)
subject: Physics and Society (physics.soc-ph)
subject: FOS: Computer and information sciences
subject: FOS: Physical sciences
subject: H.3.3; J.4

description: Opinion polls mediated through a social network can give us, in addition to usual demographics data like age, gender and geographic location, a friendship structure between voters and the temporal dynamics of their activity during the voting process. Using a Facebook application we collected friendship relationships, demographics and votes of over ten thousand users on the referendum on the definition of marriage in Croatia held on 1st of December 2013. We also collected data on online news articles mentioning our application. Publication of these articles align closely with large peaks of voting activity, indicating that these external events have a crucial influence in engaging the voters. Also, existence of strongly connected friendship communities where majority of users vote during short time period, and the fact that majority of users in general tend to friend users that voted the same suggest that peer influence also has its role in engaging the voters. As we are not able to track activity of our users at all times, and we do not know their motivations for expressing their votes through our application, the question is whether we can infer peer and external influence using friendship network of users and the times of their voting. We propose a new method for estimation of magnitude of peer and external influence in friendship network and demonstrate its validity on both simulated and actual data.
R3PACK WP5 D5.1 Framework for the demonstrator
Creators: name: Schott, Elodie
name: Covillers, Antoine
name: Cuynet, Romain
name: Francony, Laurent
Publisher: name: Zenodo
Year: 2023
Subjects: Reuse
Substitution
In-shop experiment
Single-use plastic packaging
Demonstration of business case
real-life demonstration

description: The framework of the demonstration is presenting R3PACK’s business case for upscaling reuse and substitution of single-use plastic packaging with fibre-based alternatives. Indeed, as part of the project the beneficiaries will be carrying out a real-life demonstration allowing to assess the ideal conditions for success. These learnings will be translated into precise guidelines at a later stage of the project with the aim to help any interested party in the implementation of a reuse model or new alternative packaging. The demonstration process will be further described within this deliverable, explaining its purpose, calendar and perimeter, as well the specific approach adopted by R3PACK for reuse and substitution.
HiggsBounds-5: Testing Higgs Sectors in the LHC 13 TeV Era
Creators: name: Bechtle, Philip
name: Dercks, Daniel
name: Heinemeyer, Sven
name: Klingl, Tobias
name: Stefaniak, Tim
name: Weiglein, Georg
name: Wittbrodt, Jonas
Publisher: name: Deutsches Elektronen-Synchrotron, DESY, Hamburg
Year: 2020

description: We describe recent developments of the public computer code HiggsBounds. In particular, these include the incorporation of LHC Higgs search results from Run 2 at a center-of-mass energy of 13 TeV, and an updated and extended framework for the theoretical input that accounts for improved Higgs cross section and branching ratio predictions and new search channels. We furthermore discuss an improved method used in HiggsBounds to approximately reconstruct the exclusion likelihood for LHC searches for non-standard Higgs bosons decaying to $\tau\tau$ final states. We describe in detail the new and updated functionalities of the new version HiggsBounds-5.
Dispersive interaction of a Bose-Einstein condensate with the movable mirror of an optomechanical cavity in the presence of the laser phase noise
Creators: name: Dalafi, A.
name: Naderi, M. H.
Publisher: name: arXiv
Year: 2016
Subjects: subject: Quantum Physics (quant-ph)
subject: FOS: Physical sciences

description: We theoretically investigate the dispersive interaction of a Bose-Einstein condensate (BEC) trapped inside an optomechanical cavity with a moving end mirror in the presence of the laser phase noise (LPN) as well as the atomic collisions. We assume that the effective frequency of the optical mode is much greater than those of the mechanical and the Bogoliubov modes of the movable mirror and the BEC . In the adiabatic approximation where the damping rate of the cavity is faster than those of the other modes, the system behaves as an effective two-mode model in which the atomic and mechanical modes are coupled to each other through the mediation of the optical field by an effective coupling parameter. We show that in the effective two-mode model, the LPN appears as a classical stochastic pump term which drives the amplitude quadratures of the mechanical and the Bogoliubov modes. It is also shown that a strong stationary mirror-atom entanglement can be established just in the dispersive and Doppler regimes where the two modes come into resonance with each other and the effect of the LPN gets very low.
MD simulation and MM/PBSA identifies phytochemicals as bifunctional inhibitors of SARS-CoV-2
Creators: name: Sharma, Monica
name: Mahto, Jai Krishna
name: Dhaka, Preeti
name: Neetu, Neetu
name: Tomar, Shailly
name: Kumar, Pravindra
Publisher: name: Taylor & Francis
Year: 2021
Subjects: subject: Biophysics
subject: Biochemistry
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Pharmacology
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
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology

description: The global spread of SARS-CoV-2 has resulted in millions of fatalities worldwide, making it crucial to identify potent antiviral therapeutics to combat this virus. We employed structure-assisted virtual screening to identify phytochemicals that can target the two proteases which are essential for SARS-CoV-2 replication and transcription, the main protease and papain-like protease. Using virtual screening and molecular dynamics, we discovered new phytochemicals with inhibitory activity against the two proteases. Isoginkgetin, kaempferol-3-robinobioside, methyl amentoflavone, bianthraquinone, podocarpusflavone A, and albanin F were shown to have the best affinity and inhibitory potential among the compounds, and can be explored clinically for use as inhibitors of novel coronavirus SARS-CoV-2. Communicated by Ramaswamy H. Sarma
Improving paper machine operation with zero/short span tensile testing
Creators: name: Martin, Bruce J.
Publisher: name: Monash University
Year: 2022

description: This thesis was scanned from the print manuscript for digital preservation and is copyright the author.
 Researchers can access this thesis by asking their local university, institution or public library to
 make a request on their behalf. Monash staff and postgraduate students can use the link in the References field.
Xenia rubens Schenk 1896
Creators: name: Halász, Anna
name: Mcfadden, Catherine S.
name: Toonen, Robert
name: Benayahu, Yehuda
Publisher: name: Zenodo
Year: 2019
Subjects: Biodiversity
Taxonomy
Animalia
Cnidaria
Anthozoa
Alcyonacea
Xeniidae
Xenia
Xenia rubens

description: Xenia rubens Schenk, 1896
Fig. 13
Xenia rubens Schenk, 1896: 67–68
Xenia rubens; Kükenthal 1902: 647–648
Material. Type: SMF 46, Indonesia, Ternate Island, 1894, coll. W. Kükenthal.
Description. The type is 60 mm high; its stalk is 45 mm long and splits 30 mm above the base into two branches; one branch is 20 mm long, 12 mm wide at its base and 18 mm wide at its uppermost part. The other branch is 18 mm long, 22 mm wide at its base and 35 mm wide at the uppermost part. The polyp body is up to 4 mm long, and the tentacles are up to 3 mm long. Mostly four rows of pinnules are aligned along each of the tentacle margins, occasionally 3 and even 5 rows, with 12–19 pinnules in the outermost row. The pinnules are relatively short and stout, up to 0.3 mm long and 0.15 mm wide, with spacing of no gap to up to a half pinnule-width between adjacent pinnules.
Sclerites are mainly ellipsoid platelets that appear in all parts of the colony, 0.009 –0.013 X 0.011 –0.023 mm in diameter (Fig. 13a, c, n =20). Some sclerites may feature a slightly rectangular outline and others are either round or elongated. Their surface appears uniformly granular with no fractures. Broken sclerites reveal the internal structure to consist of radial rods at the periphery and a centrally located void within their center (Fig. b). The ethanolpreserved type is light beige-yellow in color.
Remarks. In the original description Schenk (1896) indicates that X. rubens features 5–6 irregular rows of pinnules and 18–20 pinnules in the outermost row, which closely corresponds to the current findings.
Similar species and conclusions. Both X. rubens and X. fusca feature mostly four rows of pinnules and a similar number of pinnules in the outermost row (12–19 and 14–22, respectively). They share a similar type of granular sclerite surface but different internal microstructure (Figs. 13 and 6, respectively). Although the latter difference might be rather small, until further data based on freshly collected colonies become available the two species are considered as separate.
Distribution. Indonesia: Ternate Island.
description: Published as part of Halász, Anna, Mcfadden, Catherine S., Toonen, Robert & Benayahu, Yehuda, 2019, Re-description of type material of Xenia Lamarck, 1816 (Octocorallia: Xeniidae), pp. 201-239 in Zootaxa 4652 (2) on page 222, DOI: 10.11646/zootaxa.4652.2.1, http://zenodo.org/record/3363653
Bernoulli and tail-dependence compatibility
Creators: name: Embrechts, Paul
name: Hofert, Marius
name: Wang, Ruodu
Publisher: name: arXiv
Year: 2016
Subjects: subject: Probability (math.PR)
subject: FOS: Mathematics

description: The tail-dependence compatibility problem is introduced. It raises the question whether a given $d\times d$-matrix of entries in the unit interval is the matrix of pairwise tail-dependence coefficients of a $d$-dimensional random vector. The problem is studied together with Bernoulli-compatible matrices, that is, matrices which are expectations of outer products of random vectors with Bernoulli margins. We show that a square matrix with diagonal entries being 1 is a tail-dependence matrix if and only if it is a Bernoulli-compatible matrix multiplied by a constant. We introduce new copula models to construct tail-dependence matrices, including commonly used matrices in statistics.
description: Published at http://dx.doi.org/10.1214/15-AAP1128 in the Annals of Applied Probability (http://www.imstat.org/aap/) by the Institute of Mathematical Statistics (http://www.imstat.org)
Light-Activated Sensitive Probes for Amine Detection
Creators: name: Valderrey, Virginia
name: Bonasera, Aurelio
name: Fredrich, Sebastian
name: Hecht, Stefan
Publisher: name: Humboldt-Universität zu Berlin
Year: 2017
Subjects: subject: amines
subject: diarylethenes
subject: photochromism
subject: sensing
subject: 540 Chemie und zugeordnete Wissenschaften

description: Our new, simple, and accurate colorimetric method is based on diarylethenes (DAEs) for the rapid detection of a wide range of primary and secondary amines. The probes consist of aldehyde- or ketone-substituted diarylethenes, which undergo an amine-induced decoloration reaction, selectively to give the ring-closed isomer. Thus, these probes can be activated at the desired moment by light irradiation, with a sensitivity that allows the detection of amines at concentrations as low as 10exp−6 M in solution. In addition, the practical immobilization of DAEs on paper makes it possible to detect biogenic amines, such as cadaverine, in the gas phase above a threshold of 12 ppbv within 30 seconds.
Effects of residual stress on fatigue crack growth
Creators: name: Lian, Kee Siong.
Publisher: name: Monash University
Year: 2022

description: This thesis was scanned from the print manuscript for digital preservation and is copyright the author.
 Researchers can access this thesis by asking their local university, institution or public library to
 make a request on their behalf. Monash staff and postgraduate students can use the link in the References field.
Antiproliferative activity on Trypanosoma cruzi (Y strain) of the triterpene 3β,6β,16β-trihidroxilup-20 (29)-ene isolated from Combretum leprosum
Creators: name: de Araújo, José Ismael F.
name: Aires, Natália L.
name: Almeida-Neto, Francisco W. Q.
name: Marinho, Márcia M.
name: Marinho, Emanuelle M.
name: Magalhães, Emanuel Paula
name: de Menezes, Ramon R. P. P. B.
name: Sampaio, Tiago L.
name: Martins, Alice Maria Costa
name: Teixeira, Edson H.
name: Dotto, Ana Rafaela Freitas
name: do Amaral, Wanderlei
name: Teixeira, Alexandre Magno R.
name: de Lima-Neto, Pedro
name: Marinho, Emmanuel S.
name: dos Santos, Hélcio S.
Publisher: name: Taylor & Francis
Year: 2022
Subjects: subject: 29999 Physical Sciences not elsewhere classified
subject: FOS: Physical sciences
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Science Policy

description: Chagas disease infects approximately seven million people worldwide. Benznidazole is effective only in the acute phase of the disease, with an average cure rate of 80% between acute and recent cases. Therefore, there is an urgent need to find new bioactive substances that can be effective against parasites without causing so many complications to the host. In this study, the triterpene 3β-6β-16β-trihydroxilup-20 (29)-ene (CLF-1) was isolated from Combretum leprosum, and its molecular structure was determined by NMR and infrared spectroscopy. The CLF-1 was also evaluated in vitro and in silico as potential trypanocidal agent against epimastigote and trypomastigote forms of Trypanosoma cruzi (Y strain). The CLF-1 demonstrated good results highlighted by lower IC50 (76.0 ± 8.72 µM, 75.1 ± 11.0 µM, and 70.3 ± 45.4 µM) for epimastigotes at 24, 48 and 72 h, and LC50 (71.6 ± 11.6 µM) for trypomastigotes forms. The molecular docking study shows that the CLF-1 was able to interact with important TcGAPDH residues, suggesting that this natural compound may preferentially exert its effect by compromising the glycolytic pathway in T. cruzi. The ADMET study together with the MTT results indicated that the CLF-1 is well-absorbed in the intestine and has low toxicity. Thus, this work adds new evidence that CLF-1 can potentially be used as a candidate for the development of new options for the treatment of Chagas disease. Communicated by Ramaswamy H. Sarma