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Haim MS, Di Gregorio S, Galanternik L, Lubovich S, Vázquez M, Bharat A, Zaheer R, Golding GR, Graham M, Van Domselaar G, Cardona ST, Mollerach M. First description of rpsJ and mepA mutations associated with tigecycline resistance in Staphylococcus aureus isolated from a cystic fibrosis patient during antibiotic therapy. Int J Antimicrob Agents 2017; 50:739-741. [PMID: 29038088 DOI: 10.1016/j.ijantimicag.2017.10.003] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2017] [Revised: 10/04/2017] [Accepted: 10/07/2017] [Indexed: 11/28/2022]
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Berganza E, Jaafar M, Bran C, Fernández-Roldán JA, Chubykalo-Fesenko O, Vázquez M, Asenjo A. Multisegmented Nanowires: a Step towards the Control of the Domain Wall Configuration. Sci Rep 2017; 7:11576. [PMID: 28912534 PMCID: PMC5599633 DOI: 10.1038/s41598-017-11902-w] [Citation(s) in RCA: 42] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/05/2017] [Accepted: 08/30/2017] [Indexed: 11/13/2022] Open
Abstract
Cylindrical nanowires synthesized by controlled electrodeposition constitute excellent strategic candidates to engineer magnetic domain configurations. In this work, multisegmented CoNi/Ni nanowires are synthesized for tailoring a periodic magnetic structure determined by the balance between magnetocrystalline and magnetostatic energies. High-resolution Transmission Electron Microscopy confirms the segmented growth and the sharp transition between layers. Although both CoNi and Ni segments have similar fcc cubic crystal symmetry, their magnetic configuration is quite different as experimentally revealed by Magnetic Force Microscopy (MFM) imaging. While the Ni segments are single domain with axial magnetization direction, the CoNi segments present two main configurations: a single vortex state or a complex multivortex magnetic configuration, which is further interpreted with the help of micromagnetic simulations. This original outcome is ascribed to the tight competition between anisotropies. The almost monocrystalline fcc structure of the CoNi segments, as revealed by the electron diffraction patterns, which is atypical for its composition, contributes to balance the magnetocrystalline and shape anisotropies. The results of MFM measurements performed under in-plane magnetic field demonstrate that it is possible to switch from the multivortex configuration to a single vortex configuration with low magnetic fields.
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Garrido JM, Sánchez-Moreno J, Vázquez M, Hidalgo D, Valentí M, Goikolea JM, Benabarre A, Ylla A, Grande I, Vieta E, Trilla A. Evaluation of Patient Satisfaction in a State Reference Center of Bipolar Disorder. J Behav Health Serv Res 2017; 46:319-329. [DOI: 10.1007/s11414-017-9561-z] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
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Bagga K, McCann R, O'Sullivan F, Ghosh P, Krishnamurthy S, Stalcup A, Vázquez M, Brabazon D. Nanoparticle functionalized laser patterned substrate: an innovative route towards low cost biomimetic platforms. RSC Adv 2017. [DOI: 10.1039/c6ra27260f] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Integration of nanotechnology and advanced manufacturing processes presents an attractive route to produce devices for adaptive biomedical device technologies.
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Yohai L, Schreiner W, Vázquez M, Valcarce M. Phosphate ions as effective inhibitors for carbon steel in carbonated solutions contaminated with chloride ions. Electrochim Acta 2016. [DOI: 10.1016/j.electacta.2015.10.167] [Citation(s) in RCA: 49] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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Béguelin C, Vázquez M, Bertschi M, Yerly S, de Jong D, Gutbrod K, Rauch A, Cusini A. Viral Escape in the Central Nervous System with Multidrug-Resistant Human Immunodeficiency Virus-1. Open Forum Infect Dis 2015; 3:ofv210. [PMID: 26885540 PMCID: PMC4753349 DOI: 10.1093/ofid/ofv210] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/02/2015] [Accepted: 12/19/2015] [Indexed: 11/12/2022] Open
Abstract
In this study, we report the case of a patient infected with human immunodeficiency virus (HIV)-1 who developed ataxia and neurocognitive impairment due to viral escape within the central nervous system (CNS) with a multidrug-resistant HIV-1 despite long-term viral suppression in plasma. Antiretroviral therapy optimization with drugs with high CNS penetration led to viral suppression in the CSF, regression of ataxia, and improvement of neurocognitive symptoms.
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Vázquez M, Fux CA, Streit M. [Soft-tissue infection with Mycobacterium abscessus subsp. abscessus after liposuction and panniculectomy in the Caribbean]. Hautarzt 2015; 66:694-8. [PMID: 26016828 DOI: 10.1007/s00105-015-3636-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
We report the case of a 36-year-old woman who presented with a surgical site infection with atypical mycobacteria several months after liposuction in the Caribbean. Postoperative wound infections with Mycobacterium abscessus present as subcutaneous nodular abscesses with partly putrid secretion. Due to the necessity of specific diagnostic measures, diagnosis is often delayed. Treatment is difficult because Mycobacterium abscessus is resistant to conventional tuberculostatics and many other antibiotics. Clarithromycin combined with amikacin is the commonly used empirical treatment. Treatment duration is several months.
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Vázquez M, Vélez D, Devesa V, Puig S. Participation of divalent cation transporter DMT1 in the uptake of inorganic mercury. Toxicology 2015; 331:119-24. [DOI: 10.1016/j.tox.2015.03.005] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2015] [Revised: 03/06/2015] [Accepted: 03/10/2015] [Indexed: 11/24/2022]
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Pereira A, Palma JL, Vázquez M, Denardin JC, Escrig J. A soft/hard magnetic nanostructure based on multisegmented CoNi nanowires. Phys Chem Chem Phys 2015; 17:5033-8. [PMID: 25597517 DOI: 10.1039/c4cp05665e] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
In this paper we have introduced a new soft/hard nanostructure based on multisegmented CoNi nanowire arrays having diameters of around 110 nm and made of five segments with nominal compositions of Co, Co66Ni33, Co50Ni50, Co33Ni66 and Ni, each of which has a length of 800 nm, so that the total length of the multisegmented nanowire is 4 μm. These arrays have been synthesized by means of potentiostatic electrodeposition into the pores of hard-anodic alumina templates. The morphology, chemical composition and microstructure of the multisegmented CoNi nanowires were determined by high-resolution scanning electron microscopy, energy dispersive X-ray microanalysis, and powder X-ray diffraction method, respectively. The room temperature magnetic behavior of the multisegmented nanowire arrays is also studied and compared with CoNi nanowire arrays with homogeneous composition (non-segmented nanowires), synthesized in the same templates and having the same dimensions as the segmented ones. These nanostructures could be used to control the movement of magnetic domain walls. In this way, these nanostructures can be an alternative to store information or even perform logic functions.
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Tajuelo J, Pastor JM, Martínez-Pedrero F, Vázquez M, Ortega F, Rubio RG, Rubio MA. Magnetic microwire probes for the magnetic rod interfacial stress rheometer. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2015; 31:1410-1420. [PMID: 25495270 DOI: 10.1021/la5038316] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
The magnetic needle interfacial shear rheometer is a valuable tool for the study of the mechanical properties of thin fluid films or monolayers. However, it is difficult to differentiate the interfacial and subphase contributions to the drag on the needle. In principle, the problem can be addressed by decreasing the needle diameter, which decreases the bulk contribution while the interfacial contribution remains essentially the same. Here we show the results obtained when using a new type of needle, that of magnetic microwires with diameter approximately 10 times thinner than for commercial needles. We show that the lower inertia of the microwires calls for a new calibration procedure. We propose such a new calibration procedure based on the flow field solution around the needle introduced in refs 1 and 2. By measuring thin silicone oil films with well-controlled interfacial viscosities as well as eicosanol (C20) and pentadecanoic acid (PDA, C15) Langmuir monolayers, we show that the new calibration method works well for standard needles as well as for the microwire probes. Moreover, we show that the analysis of the force terms contributing to the force on the needle helps to ascertain whether the measurements obtained are reliable for given surface shear viscosity values. We also show that the microwire probes have at least a 10-fold-lower resolution limit, allowing one to measure interfacial viscosities as low as 10(-7) N·m/s.
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Vázquez M, Vélez D, Devesa V. Participation of b0,+and B0,+systems in the transport of mercury bound to cysteine in intestinal cells. Toxicol Res (Camb) 2015. [DOI: 10.1039/c4tx00205a] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
The main source of exposure to mercury (Hg) as divalent inorganic Hg [Hg(ii)] and methylmercury (CH3Hg) is the diet, in which complexes with the amino acid cysteine (Hg–Cys) may be found.
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Ivanov YP, Trabada DG, Chuvilin A, Kosel J, Chubykalo-Fesenko O, Vázquez M. Crystallographically driven magnetic behaviour of arrays of monocrystalline Co nanowires. NANOTECHNOLOGY 2014; 25:475702. [PMID: 25380279 DOI: 10.1088/0957-4484/25/47/475702] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Cobalt nanowires, 40 nm in diameter and several micrometers long, have been grown by controlled electrodeposition into ordered anodic alumina templates. The hcp crystal symmetry is tuned by a suitable choice of the electrolyte pH (between 3.5 and 6.0) during growth. Systematic high resolution transmission electron microscopy imaging and analysis of the electron diffraction patterns reveals a dependence of crystal orientation from electrolyte pH. The tailored modification of the crystalline signature results in the reorientation of the magnetocrystalline anisotropy and increasing experimental coercivity and squareness with decreasing polar angle of the 'c' growth axis. Micromagnetic modeling of the demagnetization process and its angular dependence is in agreement with the experiment and allows us to establish the change in the character of the magnetization reversal: from quasi-curling to vortex domain wall propagation modes when the crystal 'c' axis tilts more than 75° in respect to the nanowire axis.
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Gawronski P, Merazzo KJ, Chubykalo-Fesenko O, del Real RP, Vázquez M. Micromagnetism of permalloy antidot arrays prepared from alumina templates. NANOTECHNOLOGY 2014; 25:475703. [PMID: 25380329 DOI: 10.1088/0957-4484/25/47/475703] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Magnetic hysteresis processes of hexagonal arrays of permalloy antidots have been studied by means of micromagnetic simulations as a function of geometrical parameters. The ideal system shows a maximum of the coercive field as a function of the antidot diameter. The simulated magnetic behavior has been compared with experimental values for antidot arrays of permalloy prepared from alumina templates with thicknesses between 2 and 60 nm, showing a monotonic increase of the coercive field as a function of the antidot diameter. We show that the introduction into simulations of the combination of variable antidot diameters from bottom to top due to the fabrication process and, more importantly, large geometrical domains, which break the sample symmetry, solves the discrepancy between the simulations and the experiment.
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Vázquez M, Devesa V, Vélez D. Characterization of the intestinal absorption of inorganic mercury in Caco-2 cells. Toxicol In Vitro 2014; 29:93-102. [PMID: 25283090 DOI: 10.1016/j.tiv.2014.09.013] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2014] [Revised: 09/16/2014] [Accepted: 09/23/2014] [Indexed: 11/16/2022]
Abstract
The main form of mercury exposure in the general population is through food. Intestinal absorption is therefore a key step in the penetration of mercury into the systemic circulation, and should be considered when evaluating exposure risk. Many studies have investigated the transport of mercury species in different cell lines, though the mechanisms underlying their intestinal absorption are not clear. This study evaluates the accumulation and transport of Hg(II), one of the mercury species ingested in food, using Caco-2 cells as intestinal epithelium model with the purpose of clarifying the mechanisms involved in its absorption. Hg(II) shows moderate absorption, and its transport fundamentally takes place via a carrier-mediated transcellular mechanism. The experiments indicate the participation of an energy-dependent transport mechanism. In addition, H(+)- and Na(+)-dependent transport is also observed. These data, together with those obtained from inhibition studies using specific substrates or inhibitors of different transporter families, suggest the participation of divalent cation and amino acid transporters, and even some organic anion transporters, in Hg(II) intestinal transport. An important cellular accumulation of up to 51% is observed - a situation which in view of the toxic nature of this species could affect intestinal mucosal function. This study contributes new information on the mechanisms of transport of Hg(II) at intestinal level, and which may be responsible for penetration of this mercurial form into the systemic circulation.
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O'Neill PF, Ben Azouz A, Vázquez M, Liu J, Marczak S, Slouka Z, Chang HC, Diamond D, Brabazon D. Advances in three-dimensional rapid prototyping of microfluidic devices for biological applications. BIOMICROFLUIDICS 2014; 8:052112. [PMID: 25538804 PMCID: PMC4241764 DOI: 10.1063/1.4898632] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/30/2014] [Accepted: 10/06/2014] [Indexed: 05/02/2023]
Abstract
The capability of 3D printing technologies for direct production of complex 3D structures in a single step has recently attracted an ever increasing interest within the field of microfluidics. Recently, ultrafast lasers have also allowed developing new methods for production of internal microfluidic channels within the bulk of glass and polymer materials by direct internal 3D laser writing. This review critically summarizes the latest advances in the production of microfluidic 3D structures by using 3D printing technologies and direct internal 3D laser writing fabrication methods. Current applications of these rapid prototyped microfluidic platforms in biology will be also discussed. These include imaging of cells and living organisms, electrochemical detection of viruses and neurotransmitters, and studies in drug transport and induced-release of adenosine triphosphate from erythrocytes.
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Vázquez M, Vélez D, Devesa V. More on the in vitro characterization of the intestinal absorption of methylmercury. Chem Res Toxicol 2014; 27:942-3. [PMID: 24844764 DOI: 10.1021/tx500164w] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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42
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Minguez-Bacho I, Rodriguez-López S, Vázquez M, Hernández-Vélez M, Nielsch K. Electrochemical synthesis and magnetic characterization of periodically modulated Co nanowires. NANOTECHNOLOGY 2014; 25:145301. [PMID: 24622043 DOI: 10.1088/0957-4484/25/14/145301] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
The synthesis of templates with modulated pore channels by combined mild and hard anodization processes is described. The hard anodization pulses, implemented during anodization, are controlled not only in time length and amplitude, but also in shape: square and exponential signals have been applied. Electrodeposition of Co is subsequently performed to obtain uniform and modulated diameter nanowire arrays. Square and exponential modulated diameter nanowires are imaged by scanning electron microscopy and hcp hexagonal polycrystalline structure is confirmed in all Co nanowires. Magnetic behavior strongly depends on nanowire shape and is interpreted considering the modification of magnetostatic interactions between wires induced by local stray fields from magnetic charges at the ends of the wider segments in modulated wires. As a consequence, magnetization processes under parallel and perpendicular field configurations denote the contribution of both thin and wide segments.
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Rodríguez-Castillejos G, Tellez-Luis S, Vázquez M, Lois-Correa J, Ramírez J. Evaluation of sorghum grain hydrolysates and dried distillers grains with solubles for the production of microbial transglutaminase. CYTA - JOURNAL OF FOOD 2014. [DOI: 10.1080/19476337.2013.801520] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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Castañón-Rodríguez JF, Velazquez G, Montoya P, Vázquez M, Ramírez JA. Precooling treatments induce resistance of Anastrepha ludens eggs to quarantine treatments of high-pressure processing combined with cold. JOURNAL OF ECONOMIC ENTOMOLOGY 2014; 107:606-613. [PMID: 24772540 DOI: 10.1603/ec13225] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
High-pressure processing (HPP) combined with heat or cold has been proposed as an alternative quarantine process for Mexican fruit fly Anastrepha ludens Loew (Diptera: Tephritidae). HPP conditions at levels higher than 100 MPa applied to destroy eggs and larvae can also affect the postharvest physiology of the fruits. HPP at pressure levels in the range of 50-100 MPa is recommended. Eggs have been reported as being more resistant to HPP than larvae. Therefore, the objective of this study was to assess the effect of a precooling treatment on the biological viability of A. ludens eggs treated by HPP at 0 degrees C. The capability of nondestroyed eggs to develop and reproduce was also evaluated. One-, 2-, 3-, and 4-d-old eggs were precooled in ice water for 0 (control) 3, 6, 12, or 24 h and then pressurized at 50, 70, or 90 MPa for 0, 3, 6, or 9 min at 0 degrees C. The hatching capability of pressurized eggs was evaluated. The most lethal effect of HPP on nonprecooled eggs (0 h) was obtained at 90 MPa for 9 min, destroying all eggs except for the 3-d-old ones, which showed an 11.8% hatch rate. Precooling treatment improved the hatch rate of eggs ranging from 4 to 50% depending on precooling conditions. The main effect was observed after 6 h. These results suggest that precooling modified the biochemistry and physiology of eggs, improving their resistance to HPP treatments.
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Martelo-Vidal MJ, Vázquez M. Determination of polyphenolic compounds of red wines by UV-VIS-NIR spectroscopy and chemometrics tools. Food Chem 2014; 158:28-34. [PMID: 24731310 DOI: 10.1016/j.foodchem.2014.02.080] [Citation(s) in RCA: 88] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2013] [Revised: 02/14/2014] [Accepted: 02/17/2014] [Indexed: 11/19/2022]
Abstract
Spectral analysis is a quick and non-destructive method to analyse wine. In this work, trans-resveratrol, oenin, malvin, catechin, epicatechin, quercetin and syringic acid were determined in commercial red wines from DO Rías Baixas and DO Ribeira Sacra (Spain) by UV-VIS-NIR spectroscopy. Calibration models were developed using principal component regression (PCR) or partial least squares (PLS) regression. HPLC was used as reference method. The results showed that reliable PLS models were obtained to quantify all polyphenols for Rías Baixas wines. For Ribeira Sacra, feasible models were obtained to determine quercetin, epicatechin, oenin and syringic acid. PCR calibration models showed worst reliable of prediction than PLS models. For red wines from mencía grapes, feasible models were obtained for catechin and oenin, regardless the geographical origin. The results obtained demonstrate that UV-VIS-NIR spectroscopy can be used to determine individual polyphenolic compounds in red wines.
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Vaquero I, Vázquez M, Ruiz-Domínguez M, Vílchez C. Enhanced production of a lutein-rich acidic environment microalga. J Appl Microbiol 2014; 116:839-50. [DOI: 10.1111/jam.12428] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2013] [Revised: 12/02/2013] [Accepted: 12/18/2013] [Indexed: 11/29/2022]
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47
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Fabrega Ribera M, Ilzarbe D, Mansilla S, Pérez A, Vázquez M, Soler V, Martín-Santos R, Lázaro L. EPA-1231 – Study of psychiatric emergencies in children and adolescents. Eur Psychiatry 2014. [DOI: 10.1016/s0924-9338(14)78473-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 10/25/2022] Open
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48
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Corona Sánchez J, Córdoba S, Salazar G, Doval A, Vázquez M, Alcántara P, de Las Heras M, Carreras J. Comparison of gross tumor volume (GTV) determined by 18F-FDG PET/CT and MRI in radiotherapy planning in rectal cancer. Rep Pract Oncol Radiother 2013. [DOI: 10.1016/j.rpor.2013.03.193] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022] Open
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49
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González-san Segundo C, Zapatero A, Guerrero A, Maldonado X, Álvarez A, Cabeza M, Macías V, Casas F, Pedro-olivé A, Boladeras A, Martín de Vidales C, Vázquez M, Calvo F. Testoterone kinetics after androgen-deprivation therapy in intermediate and high risk prostate cancer: Results from a randomized trial (DART01/05). Rep Pract Oncol Radiother 2013. [DOI: 10.1016/j.rpor.2013.03.824] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022] Open
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50
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Nogales-Cadenas R, Jonic S, Tama F, Arteni AA, Tabas-Madrid D, Vázquez M, Pascual-Montano A, Sorzano COS. 3DEM Loupe: Analysis of macromolecular dynamics using structures from electron microscopy. Nucleic Acids Res 2013; 41:W363-7. [PMID: 23671335 PMCID: PMC3692114 DOI: 10.1093/nar/gkt385] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
Electron microscopy (EM) provides access to structural information of macromolecular complexes in the 3-20 Å resolution range. Normal mode analysis has been extensively used with atomic resolution structures and successfully applied to EM structures. The major application of normal modes is the identification of possible conformational changes in proteins. The analysis can throw light on the mechanism following ligand binding, protein-protein interactions, channel opening and other functional macromolecular movements. In this article, we present a new web server, 3DEM Loupe, which allows normal mode analysis of any uploaded EM volume using a user-friendly interface and an intuitive workflow. Results can be fully explored in 3D through animations and movies generated by the server. The application is freely available at http://3demloupe.cnb.csic.es.
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