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The AMIGA muon detectors of the Pierre Auger Observatory
Federico Suarez, Andrej Filipčič, Thomas Paul, Samo Stanič, Darko Veberič, Danilo Zavrtanik, Marko Zavrtanik, 2013, objavljeni znanstveni prispevek na konferenci

Najdeno v: osebi
Ključne besede: Observatorij Pierre Auger, kozmični žarki, mion
Objavljeno: 15.10.2013; Ogledov: 2170; Prenosov: 6
URL Polno besedilo (0,00 KB)

Relocation and Hair Cortisol Concentrations in New Zealand White Rabbits.
Alberto Prandi, Marco Stebel, Federico Canavese, Marta Montillo, Mirco Corazzin, Antonella Comin, Tanja Peric, 2016, izvirni znanstveni članek

Opis: To investigate how long relocation modified hair cortisol concentrations in New Zealand white rabbits, 19 rabbits were subjected to a change in their breeding facility at the beginning of the trial and then were kept under stable environmental conditions. Hair samples were collected at the time of arrival to the nonhuman animal facility and at 40-day intervals from the same skin area for up to 440 days after the animals' arrival to the facility. A period effect on the hair cortisol concentration was found (p < .01). The transfer of the rabbits to the new facility might have induced an increase in the hypothalamic-pituitary-adrenal axis activity (p < .01). A second increase in hair cortisol concentration (p < .01) occurred at 320 days, after a change of personnel at the facility that occurred at 280 days, which was the only environmental change. The relocation of rabbits to the facility resulted in a stress response leading to elevated cortisol levels. The effect of relocation on mean cortisol concentrations was exhausted within 120 days when all environmental factors were kept stable.
Najdeno v: osebi
Ključne besede: Cortisol, HPA axis, hair, rabbit, relocation
Objavljeno: 21.07.2016; Ogledov: 1535; Prenosov: 0

Hair cortisol concentrations in New Zealand white rabbits subjected to surgery
Tanja Peric, Antonella Comin, Mirco Corazzin, Marta Montillo, Federico Canavese, Marco Stebel, Alberto Prandi, 2018, izvirni znanstveni članek

Opis: The aim of this study was to assess hair cortisol concentrations in New Zealand white rabbits (Oryctolagus cuniculus) that were subjected to relocation and surgery to evaluate HPA-axis activity; in addition, we used this marker of cortisol secretion to evaluate the allostatic load of animals undergoing surgery. After a period of acclimatisation, which lasted 40 days from their arrival at the enclosure, 19 rabbits were subjected to T1–T12 dorsal arthrodesis (RS), 19 were sham-operated (SS), and 19 were non-operated (CON). Hair samples were collected at the time of arrival (ST1) at the animal facility, and seven other sets of hair samples were collected at 40-day intervals from the same area of skin for a period of 240 days as re-shaved hair (anagen phase): immediately before surgery (ST2) and after the surgery (ST3, ST4, ST5, ST6, ST7, and ST8). The transition from the rabbitry to the animal breeding facility led to a significant increase in cortisol concentration (ST2) in all of the groups. At ST3, the RS group presented higher cortisol concentrations than those of the SS group and the CON group. At ST4, the experimental groups showed similar values that remained constant until ST8. The results show that the management of rabbits undergoing surgery should be evaluated very carefully, and hair cortisol concentrations may provide a means of avoiding the dangerous cumulative effects of additional stressors close to surgery.
Najdeno v: osebi
Ključne besede: animal welfare, cortisol, hair, HPA axis, rabbit, surgery
Objavljeno: 09.02.2018; Ogledov: 982; Prenosov: 0
.pdf Polno besedilo (186,99 KB)

Distance-based configurational entropy of proteins from molecular dynamics simulations
Federico Fogolari, Alessandra Corazza, Sara Fortuna, Miguel Angel Soler, Bryan VanSchouwen, Giorgia Brancolini, Stefano Corni, Giuseppe Melacini, Gennaro Esposito, 2015, izvirni znanstveni članek

Opis: Estimation of configurational entropy from molecular dynamics trajectories is a difficult task which is often performed using quasi-harmonic or histogram analysis. An entirely different approach, proposed recently, estimates local density distribution around each conformational sample by measuring the distance from its nearest neighbors. In this work we show this theoretically well grounded the method can be easily applied to estimate the entropy from conformational sampling. We consider a set of systems that are representative of important biomolecular processes. In particular: reference entropies for amino acids in unfolded proteins are obtained from a database of residues not participating in secondary structure elements; the conformational entropy of folding of β2-microglobulin is computed from molecular dynamics simulations using reference entropies for the unfolded state; backbone conformational entropy is computed from molecular dynamics simulations of four different states of the EPAC protein and compared with order parameters (often used as a measure of entropy); the conformational and rototranslational entropy of binding is computed from simulations of 20 tripeptides bound to the peptide binding protein OppA and of β2-microglobulin bound to a citrate coated gold surface. This work shows the potential of the method in the most representative biological processes involving proteins, and provides a valuable alternative, principally in the shown cases, where other approaches are problematic.
Najdeno v: osebi
Ključne besede: entropy, protein, molecular dynamics, simulations, MD
Objavljeno: 12.10.2016; Ogledov: 1494; Prenosov: 134
.pdf Polno besedilo (2,40 MB)

Chelating effect in short polymers for the design of bidentate binders of increased affinity and selectivity
Sara Fortuna, Federico Fogolari, Giacinto Scoles, 2015, izvirni znanstveni članek

Opis: The design of new strong and selective binders is a key step towards the development of new sensing devices and effective drugs. Both affinity and selectivity can be increased through chelation and here we theoretically explore the possibility of coupling two binders through a flexible linker. We prove the enhanced ability of double binders of keeping their target with a simple model where a polymer composed by hard spheres interacts with a spherical macromolecule, such as a protein, through two sticky spots. By Monte Carlo simulations and thermodynamic integration we show the chelating effect to hold for coupling polymers whose radius of gyration is comparable to size of the chelated particle. We show the binding free energy of flexible double binders to be higher than that of two single binders and to be maximized when the binding sites are at distances comparable to the mean free polymer end-to-end distance. The affinity of two coupled binders is therefore predicted to increase non linearly and in turn, by targeting two non-equivalent binding sites, this will lead to higher selectivity.
Najdeno v: osebi
Ključne besede: chelation, polymer, multivalency, bidentate, free energy, thermodynamic integration, Monte Carlo
Objavljeno: 11.10.2016; Ogledov: 1306; Prenosov: 69
.pdf Polno besedilo (1,68 MB)

Accurate estimation of the entropy of rotation-translation probability distributions
Federico Fogolari, Cedrix Jurgal Dongmo Foumthuim, Sara Fortuna, Miguel Angel Soler, Alessandra Corazza, Gennaro Esposito, 2016, izvirni znanstveni članek

Opis: The estimation of rotational and translational entropies in the context of ligand binding has been the subject of long-time investigations. The high dimensionality (six) of the problem and the limited amount of sampling often prevent the required resolution to provide accurate estimates by the histogram method. Recently, the nearest-neighbor distance method has been applied to the problem, but the solutions provided either address rotation and translation separately, therefore lacking correlations, or use a heuristic approach. Here we address rotational–translational entropy estimation in the context of nearest-neighbor-based entropy estimation, solve the problem numerically, and provide an exact and an approximate method to estimate the full rotational–translational entropy.
Najdeno v: osebi
Ključne besede: entropy, probability distribution, molecular dynamics, nearest-neighbor
Objavljeno: 11.10.2016; Ogledov: 1531; Prenosov: 0
.pdf Polno besedilo (1,47 MB)

Dealing with network changes in cellular fingerprint positioning systems
Chris Marshall, Federico Pittino, Andrea Dalla Torre, Donatella Gubiani, Angelo Montanari, Paolo Gallo, Andrea Viel, 2017, objavljeni znanstveni prispevek na konferenci

Opis: Besides being a fundamental infrastructure for communication, cellular networks are exploited for positioning through signal fingerprinting. Maintaining the fingerprint database consistent and up-to-date is a challenging task in many fingerprint positioning systems, e.g., in those populated by a crowd-sourcing effort. To this end, detecting and tracking the changes in the configurations of cellular networks over time is recognized as a relevant problem. In this paper, we show that to cope with this problem we can successfully exploit information provided by Timing Advance (TA). As a by-product, we prove that TA can improve the fingerprint candidate selection phase, reducing the number of fingerprints to provide as input to positioning algorithms. The effectiveness of the proposed improvements has been tested on a fingerprint positioning system with a large fingerprint dataset collected over a period of 2 years.
Najdeno v: osebi
Ključne besede: fingerprint positioning systems, cellular communication networks, network changes
Objavljeno: 13.06.2018; Ogledov: 1061; Prenosov: 0
.pdf Polno besedilo (4,64 MB)

Map matching with sparse cellular fingerprint observations
Chris Marshall, Federico Pittino, Andrea Dalla Torre, Angelo Montanari, Paolo Gallo, Donatella Gubiani, Andrea Viel, 2018, objavljeni znanstveni prispevek na konferenci

Najdeno v: osebi
Ključne besede: map matching, fingerprint, trajectories
Objavljeno: 09.12.2018; Ogledov: 812; Prenosov: 0
.pdf Polno besedilo (2,85 MB)

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