Développement, validation et nouvelles applications d’un modèle d’analyse des modes normaux basé sur la séquence et la structure de protéines

Les protéines existent sous différents états fonctionnels régulés de façon précise par leur environnement afin de maintenir l‘homéostasie de la cellule et de l‘organisme vivant. La prévalence de ces états protéiques est dictée par leur énergie libre de Gibbs alors que la vitesse de transition entre ces états biologiquement pertinents est déterminée par le paysage d‘énergie libre. Ces paramètres sont particulièrement intéressants dans un contexte thérapeutique et biotechnologique, où leur perturbation par la modulation de la séquence protéique par des mutations affecte leur fonction. Bien que des nouvelles approches expérimentales permettent d‘étudier l‘effet de mutations en haut débit pour une protéine, ces méthodes sont laborieuses et ne couvrent qu‘une fraction de l‘ensemble des structures primaires d‘intérêt. L‘utilisation de modèles bio-informatiques permet de tester et générer in silico différentes hypothèses afin d‘orienter les approches expérimentales. Cependant, ces méthodes basées sur la structure se concentrent principalement sur la prédiction de l‘enthalpie d‘un état, alors que plusieurs évidences expérimentales ont démontré l‘importance de la contribution de l‘entropie. De plus, ces approches ignorent l‘importance de l‘espace conformationnel protéique dicté par le paysage énergétique cruciale à son fonctionnement. Une analyse des modes normaux peut être effectuée afin d‘explorer cet espace par l‘approximation que la protéine est dans une conformation d‘équilibre où chaque acide aminé est représenté par une masse régie par un potentiel harmonique. Les approches actuelles ignorent l‘identité des résidus et ne peuvent prédire l‘effet de mutations sur les propriétés dynamiques. Nous avons développé un nouveau modèle appelé ENCoM qui pallie à cette lacune en intégrant de l‘information physique et spécifique sur les contacts entre les atomes des chaînes latérales. Cet ajout permet une meilleure description de changements conformationnels d‘enzymes, la prédiction de l‘effet d‘une mutation allostérique dans la protéine DHFR et également la prédiction de l‘effet de mutations sur la stabilité protéique par une valeur entropique. Comparativement à des approches spécifiquement développées pour cette application, ENCoM est plus constant et prédit mieux l‘effet de mutations stabilisantes. Notre approche a également été en mesure de capturer la pression évolutive qui confère aux protéines d‘organismes thermophiles une thermorésistance accrue.

Adsorção de cromo (VI) em leito fixo utilizando partículas de areia recobertas com Quitosana

Neste trabalho foi avaliado o processo de recobrimento de partículas de areia com quitosana utilizando a técnica dip-coating, e analisado o emprego destas partículas como recheio de uma coluna de leito fixo no processo de adsorção de cromo (VI) em solução aquosa. A quitosana foi obtida a partir de resíduos de camarão e caracterizada. O estudo avaliou a influência do tamanho das partículas e da concentração da solução de quitosana no recobrimento das partículas de areia. Foram avaliados parâmetros termodinâmicos, isotermas de equilíbrio e parâmetros relacionados ao funcionamento do leito (vazão e pH da solução, diâmetro de partícula) para o processo de adsorção de cromo (VI) em solução aquosa. No recobrimento das partículas de areia, o tamanho não teve significância na resposta, enquanto a concentração da solução de recobrimento mostrou ter grande influência sobre o resultado, sendo que a menor concentração de quitosana dentro da faixa estudada (0,5% p/v) apresentou o melhor desempenho. O processo de cura física para o recobrimento das partículas de areia mostrou melhor desempenho para a adsorção de cromo (VI) em leito fixo frente ao processo físico-químico. As análises de superfície (MEV) e de difração de raio-X (EDX) comprovaram a mudança na superfície das partículas recobertas e a presença de cromo após a adsorção. O modelo de Sips foi o que melhor representou os dados experimentais de equilíbrio, com R2 >0,99% e EMR<3,5%, sendo que a capacidade máxima de adsorção foi de 46,93 mg g-1 obtida a 298 K. O processo se mostrou espontâneo, exotérmico e favorável, com valores de -4,49 a -4,66kJ mol-1 para e energia livre de Gibbs, -5,97kJ mol-1 para a variação de entalpia e -5,17x10-3 kJ mol-1K -1 para variação de entropia. O aumento do pH diminuiu a adsorção de cromo (VI), sendo que a melhor resposta foi obtida em pH 3, sendo que o diâmetro de partícula não teve efeito significante. O estudo da vazão da solução de cromo (VI) no desempenho do leito mostrou que no menor valor (2,5 mL min-1 ) a concentração de saída do leito foi próxima a zero, mantendo-se com concentrações de saída abaixo de 20% por pelo menos 20 min. O estudo da dessorção do leito mostrou que após cinco ciclos de trabalho o leito manteve 86% da capacidade de adsorção, com taxas de recuperação do cromo no processo de dessorção maiores que 95%.

On the interaction of bovine serum albumin with ionic surfactants: Temperature induced EPR changes of a maleimide nitroxide reflect local protein dynamics and probe solvent accessibility

The interaction of bovine serum albumin (BSA) with the ionic surfactants sodium dodecylsulfate (SDS, anionic), cetyltrimethylammonium chloride (CTAC, cationic) and N-hexadecyl-N,N-dimethyl-3-ammonio-1-propanesulfonate (HPS, zwitterionic) was studied by electron paramagnetic resonance (EPR) spectroscopy of spin label covalently bound to the single free thiol group of the protein. EPR spectra simulation allows to monitor the protein dynamics at the labeling site and to estimate the changes in standard Gibbs free energy, enthalpy and entropy for transferring the nitroxide side chain from the more motionally restricted to the less restricted component. Whereas SDS and CTAC showed similar increases in the dynamics of the protein backbone for all measured concentrations. HPS presented a smaller effect at concentrations above 1.5 mM. At 10 mM of surfactants and 0.15 mM BSA, the standard Gibbs free energy change was consistent with protein backbone conformations more expanded and exposed to the solvent as compared to the native protein, but with a less pronounced effect for HPS. In the presence of the surfactants, the enthalpy change, related to the energy required to dissociate the nitroxide side chain from the protein, was greater, suggesting a lower water activity. The nitroxide side chain also detected a higher viscosity environment in the vicinity of the paramagnetic probe induced by the addition of the surfactants. The results suggest that the surfactant-BSA interaction, at higher surfactant concentration, is affected by the affinities of the surfactant to its own micelles and micelle-like aggregates. Complementary DLS data suggests that the temperature induced changes monitored by the nitroxide probe reflects local changes in the vicinity of the single thiol group of Cys-34 BSA residue. (C) 2011 Elsevier B.V. All rights reserved.

Interaction of Multiwalled Carbon Nanotube Produces Structural Alteration of DNA

Multiwalled carbon nanotube (MWCNT) has been found to produce structural changes in Calf Thymus-DNA (CT-DNA). The interaction or binding of the multi-walled carbon nanotubes (MWCNT) was investigated in order to discover if it brings about any significant changes of the DNA double helix using CD spectra of the CT-DNA at two concentration levels of MWCNT representing an increasing MWCNT/DNA molar ratio. In addition, spectrophotometric titrations between MWCNT and CT-DNA were carried out in order to utilize spectral changes as a means of detecting specific binding modes of either intercalation or degradation of DNA. Interactions of MWCNT induced significant changes in the CD spectra of the B-form of natural DNA. The intensities of the positive CD band at 280 nm decreased significantly. This decrease was found to be concentration-dependent. Following spectrophotometric titrations; specific subtle conformational changes were observed with a molar ratio combination of 2:1 between MWCNT and CT-DNA and these were characterized by a formation constant of the order of 103 M-1 and a negative Gibbs free energy suggesting that MWCNT avidly binds to DNA. Thermodynamic considerations revealed that electrostatic interactions between the DNA base pairs and the MWCNT are taking place accounting for the negative free energy change, positive enthalpy change with a small entropy change. The results obtained in the study of the binding interactions of MWCNT with DNA confirm that a cytogenetic effect of MWCNT with DNA is a possibility in vivo.

Impact of the cation symmetry on the mutual solubilities between water and imidazolium-based ionic liquids

Aiming at the evaluation of the impact of the ionic liquids (ILs) cation symmetry on their phase behaviour, in this work, novel mutual solubilities with water of the symmetric series of [C(n)C(n)im][NTf2] (with n=1-5) were determined and compared with their isomeric forms of the asymmetric [C(n)C(1)im][NTf2] group. While the solubility of isomeric ILs in water was found to be similar, the solubility of water in ILs follows the same trend up to a maximum cation alkyl side chain length. For n >= 4 in [C(n)C(n)im][NTf2] the solubility of water in the asymmetric ILs is slightly higher than that observed in the symmetric counterparts. The thermodynamic properties of solution and solvation derived from the experimental solubility data of ILs in water at infinite dilution, namely the Gibbs energy, enthalpy and entropy were used to evaluate the cation symmetry effect on the ILs solvation. It is shown that the solubility of ILs in water is entropically driven and highly influenced by the cation size. Accordingly, it was found that the ILs solubility in water of both symmetric and asymmetric series depends on their molecular volume. Based on these findings, a linear correlation between the logarithm of the solubility of ILs in water and their molar volume is here proposed for the [NTf2]-based ILs at a fixed temperature.

Measurements of activity coefficients at infinite dilution of organic solutes and water on polar imidazolium-based ionic liquids

The activity coefficients at infinite dilution, gamma(infinity)(13), of 55 organic solutes and water in three ionic liquids with the common cation 1-butyl-3-methylimidazolium and the polar anions Cl--,Cl- [CH3SO3](-) and [(CH3)(2)PO4](-), were determined by (gas + liquid) chromatography at four temperatures in the range (358.15 to 388.15) K for alcohols and water, and T = (398.15 to 428.15) K for the other organic solutes including alkanes, cycloalkanes, alkenes, cycloalkenes, alkynes, ketones, ethers, cyclic ethers, aromatic hydrocarbons, esters, butyraldehyde, acetonitrile, pyridine, 1-nitropropane and thiophene. From the experimental gamma(infinity)(13) values, the partial molar excess Gibbs free energy, (G) over bar (E infinity)(m), enthalpy (H) over bar (E infinity)(m), and entropy (S) over bar (E infinity)(m), at infinite dilution, were estimated in order to provide more information about the interactions between the solutes and the ILs. Moreover, densities were measured and (gas + liquid) partition coefficients (KL) calculated. Selectivities at infinite dilution for some separation problems such as octane/benzene, cyclohexane/benzene and cyclohexane/thiophene were calculated using the measured gamma(infinity)(13), and compared with literature values for N-methyl-2-pyrrolidinone (NMP), sulfolane, and other ionic liquids with a common cation or anion of the ILs here studied. From the obtained infinite dilution selectivities and capacities, it can be concluded that the ILs studied may replace conventional entrainers applied for the separation processes of aliphatic/aromatic hydrocarbons.

Selección y estimación de parámetros genéticos en bovinos lecheros

La estimación de parámetros genéticos en bovinos lecheros requiere ajustar modelos estadísticos para datos longitudinales (modelos de regresión aleatoria y/o medidas repetidas). Es esencial en regresión aleatoria determinar el orden correcto de los polinomios que describen los coeficientes aleatorios en el tiempo. Tradicionalmente, esta tarea se desarrolló empleando criterios de selección como AIC o BIC, que no siempre logran dilucidar claramente el modelo apropiado. Esta tesis introduce el criterio PAL para la selección del orden del polinomio en modelos de regresión aleatoria, empleando una penalización adaptativa de la función de verosimilitud. Comparativamente, PAL presentó un desempeño superior a AIC y BIC, y su aplicación a datos de producción produjo un modelo parsimonioso, con buena bondad de ajuste y habilidad de predicción. Se abordó además el problema de estimar parámetros genéticos bajo un modelo de medidas repetidas para caracteres que muestran distribución asimétrica. Para evitar desvíos del supuesto de normalidad de los errores, se presentó un modelo alternativo basado en asumir una distribución Normal asimétrica. Se implementó un enfoque bayesiano con muestreo de Gibbs en datos de intervalos entre partos. Incluyendo un parámetro adicional, se obtuvieron estimaciones más precisas de los parámetros genéticos. Estos desarrollos metodológicos estuvieron motivados por los desafíos que enfrenta actualmente el programa de mejoramiento genético de la raza Holstein en Colombia. Entre ellos, figura también el impacto de introducir toros extranjeros provenientes del programa de selección genómica norteamericana. En este marco, se estimó el progreso genético esperado en la población comercial colombiana. Los cálculos reflejaron que utilizar toros genómicos jóvenes se traducirá en una respuesta genética acelerada y en una disminución de la diferencia genética entre el hato comercial y el núcleo del cual provienen.

CATARINA 2012-Leg 1 - CTD-O2 Data report

The CATARINA Leg1 cruise was carried out from June 22 to July 24 2012 on board the B/O Sarmiento de Gamboa, under the scientific supervision of Aida Rios (CSIC-IIM). It included the occurrence of the OVIDE hydrological section that was performed in June 2002, 2004, 2006, 2008 and 2010, as part of the CLIVAR program (name A25) ), and under the supervision of Herlé Mercier (CNRSLPO). This section begins near Lisbon (Portugal), runs through the West European Basin and the Iceland Basin, crosses the Reykjanes Ridge (300 miles north of Charlie-Gibbs Fracture Zone, and ends at Cape Hoppe (southeast tip of Greenland). The objective of this repeated hydrological section is to monitor the variability of water mass properties and main current transports in the basin, complementing the international observation array relevant for climate studies. In addition, the Labrador Sea was partly sampled (stations 101-108) between Greenland and Newfoundland, but heavy weather conditions prevented the achievement of the section south of 53°40’N. The quality of CTD data is essential to reach the first objective of the CATARINA project, i.e. to quantify the Meridional Overturning Circulation and water mass ventilation changes and their effect on the changes in the anthropogenic carbon ocean uptake and storage capacity. The CATARINA project was mainly funded by the Spanish Ministry of Sciences and Innovation and co-funded by the Fondo Europeo de Desarrollo Regional. The hydrological OVIDE section includes 95 surface-bottom stations from coast to coast, collecting profiles of temperature, salinity, oxygen and currents, spaced by 2 to 25 Nm depending on the steepness of the topography. The position of the stations closely follows that of OVIDE 2002. In addition, 8 stations were carried out in the Labrador Sea. From the 24 bottles closed at various depth at each stations, samples of sea water are used for salinity and oxygen calibration, and for measurements of biogeochemical components that are not reported here. The data were acquired with a Seabird CTD (SBE911+) and an SBE43 for the dissolved oxygen, belonging to the Spanish UTM group. The software SBE data processing was used after decoding and cleaning the raw data. Then, the LPO matlab toolbox was used to calibrate and bin the data as it was done for the previous OVIDE cruises, using on the one hand pre and post-cruise calibration results for the pressure and temperature sensors (done at Ifremer) and on the other hand the water samples of the 24 bottles of the rosette at each station for the salinity and dissolved oxygen data. A final accuracy of 0.002°C, 0.002 psu and 0.04 ml/l (2.3 umol/kg) was obtained on final profiles of temperature, salinity and dissolved oxygen, compatible with international requirements issued from the WOCE program.

DIFFUSE-INTERFACE FIELD APPROACH TO MODELING SELF-ASSEMBLY OF HETEROGENEOUS COLLOIDAL SYSTEMS AND RELATED DIPOLE-DIPOLE INTERACTION PHENOMENA

Colloid self-assembly under external control is a new route to fabrication of advanced materials with novel microstructures and appealing functionalities. The kinetic processes of colloidal self-assembly have attracted great interests also because they are similar to many atomic level kinetic processes of materials. In the past decades, rapid technological progresses have been achieved on producing shape-anisotropic, patchy, core-shell structured particles and particles with electric/magnetic charges/dipoles, which greatly enriched the self-assembled structures. Multi-phase carrier liquids offer new route to controlling colloidal self-assembly. Therefore, heterogeneity is the essential characteristics of colloid system, while so far there still lacks a model that is able to efficiently incorporate these possible heterogeneities. This thesis is mainly devoted to development of a model and computational study on the complex colloid system through a diffuse-interface field approach (DIFA), recently developed by Wang et al. This meso-scale model is able to describe arbitrary particle shape and arbitrary charge/dipole distribution on the surface or body of particles. Within the framework of DIFA, a Gibbs-Duhem-type formula is introduced to treat Laplace pressure in multi-liquid-phase colloidal system and it obeys Young-Laplace equation. The model is thus capable to quantitatively study important capillarity related phenomena. Extensive computer simulations are performed to study the fundamental behavior of heterogeneous colloidal system. The role of Laplace pressure is revealed in determining the mechanical equilibrium of shape-anisotropic particles at fluid interfaces. In particular, it is found that the Laplace pressure plays a critical role in maintaining the stability of capillary bridges between close particles, which sheds light on a novel route to in situ firming compact but fragile colloidal microstructures via capillary bridges. Simulation results also show that competition between like-charge repulsion, dipole-dipole interaction and Brownian motion dictates the degree of aggregation of heterogeneously charged particles. Assembly and alignment of particles with magnetic dipoles under external field is studied. Finally, extended studies on the role of dipole-dipole interaction are performed for ferromagnetic and ferroelectric domain phenomena. The results reveal that the internal field generated by dipoles competes with external field to determine the dipole-domain evolution in ferroic materials.

Simple approximate MAP inference for Dirichlet processes mixtures

The Dirichlet process mixture model (DPMM) is a ubiquitous, flexible Bayesian nonparametric statistical model. However, full probabilistic inference in this model is analytically intractable, so that computationally intensive techniques such as Gibbs sampling are required. As a result, DPMM-based methods, which have considerable potential, are restricted to applications in which computational resources and time for inference is plentiful. For example, they would not be practical for digital signal processing on embedded hardware, where computational resources are at a serious premium. Here, we develop a simplified yet statistically rigorous approximate maximum a-posteriori (MAP) inference algorithm for DPMMs. This algorithm is as simple as DP-means clustering, solves the MAP problem as well as Gibbs sampling, while requiring only a fraction of the computational effort. (For freely available code that implements the MAP-DP algorithm for Gaussian mixtures see http://www.maxlittle.net/.) Unlike related small variance asymptotics (SVA), our method is non-degenerate and so inherits the “rich get richer” property of the Dirichlet process. It also retains a non-degenerate closed-form likelihood which enables out-of-sample calculations and the use of standard tools such as cross-validation. We illustrate the benefits of our algorithm on a range of examples and contrast it to variational, SVA and sampling approaches from both a computational complexity perspective as well as in terms of clustering performance. We demonstrate the wide applicabiity of our approach by presenting an approximate MAP inference method for the infinite hidden Markov model whose performance contrasts favorably with a recently proposed hybrid SVA approach. Similarly, we show how our algorithm can applied to a semiparametric mixed-effects regression model where the random effects distribution is modelled using an infinite mixture model, as used in longitudinal progression modelling in population health science. Finally, we propose directions for future research on approximate MAP inference in Bayesian nonparametrics.

Deindustrialisation and industrial communities: the Lanarkshire coalfields c.1947-1983

This thesis examines deindustrialisation, the declining contribution of industrial activities to economic output and employment, in Lanarkshire, Scotland’s largest coalfield between the early nineteenth and mid-twentieth century. It focuses on contraction between the National Coal Board’s (NCB) vesting in 1947 and the closure of Lanarkshire’s last colliery, Cardowan, in 1983. Deindustrialisation was not the natural outcome of either market forces or geological exhaustion. Colliery closures and falling coal employment were the result of policy-makers’ decisions. The thesis consists of four thematic chapters: political economy, moral economy, class and community, and generation and gender. The analysis is based on archival sources including Scottish Office reports and correspondence relating to regional policy, and NCB records. These are supported by National Union of Mineworkers Scottish Area and STUC meeting minutes, and oral history testimonies from over 30 men and women with Lanarkshire coalfield backgrounds, as well as two focus groups. The first two chapters analyse the process of deindustrialisation, with the first offering a top-down perspective and the second a bottom-up viewpoint. In chapter one deindustrialisation is analysed through changes in political economy. Shifts in labour market structure are examined through the development of regional policy and its administration by the Scottish Office. The analysis centres upon a policy network of Scottish business elites and civil servants who shaped a vision of modernisation via industrial diversification through attracting inward investment. In chapter two the perspective shifts to community and workforce. It analyses responses to coalfield contraction through a moral economy of customary rights to colliery employment. A detailed investigation of Lanarkshire colliery closures between the 1940s and 1980s emphasises the protracted nature of deindustrialisation. Chapters three and four consider the social and cultural structures which shaped the moral economy but were heavily altered by deindustrialisation. Chapter three focuses on the dense networks that linked occupation, community, and class consciousness. Increasing coalfield centralisation and remote control of pits from NCB headquarters in London, and mounting hostility to coal closures, contributed to an accentuated sense of Scottish-ness. Chapter four illuminates gender and generational dimensions. The differing experiences of cohorts of men who faced either early retirement, redundancy or transfer to alternative sectors, or those who never attained anticipated industrial employment due to final closures, are analysed in terms of constructions of masculinity and the endurance of cultural as well as material losses. This is counterpoised to women who gained industrial work in assembly plants and the perceived gradual attainment of an improved economic and social position whilst continuing to navigate structures of patriarchy.

Sparse hierarchical Bayesian models for detecting relevant antigenic sites in virus evolution

Understanding how virus strains offer protection against closely related emerging strains is vital for creating effective vaccines. For many viruses, including Foot-and-Mouth Disease Virus (FMDV) and the Influenza virus where multiple serotypes often co-circulate, in vitro testing of large numbers of vaccines can be infeasible. Therefore the development of an in silico predictor of cross-protection between strains is important to help optimise vaccine choice. Vaccines will offer cross-protection against closely related strains, but not against those that are antigenically distinct. To be able to predict cross-protection we must understand the antigenic variability within a virus serotype, distinct lineages of a virus, and identify the antigenic residues and evolutionary changes that cause the variability. In this thesis we present a family of sparse hierarchical Bayesian models for detecting relevant antigenic sites in virus evolution (SABRE), as well as an extended version of the method, the extended SABRE (eSABRE) method, which better takes into account the data collection process. The SABRE methods are a family of sparse Bayesian hierarchical models that use spike and slab priors to identify sites in the viral protein which are important for the neutralisation of the virus. In this thesis we demonstrate how the SABRE methods can be used to identify antigenic residues within different serotypes and show how the SABRE method outperforms established methods, mixed-effects models based on forward variable selection or l1 regularisation, on both synthetic and viral datasets. In addition we also test a number of different versions of the SABRE method, compare conjugate and semi-conjugate prior specifications and an alternative to the spike and slab prior; the binary mask model. We also propose novel proposal mechanisms for the Markov chain Monte Carlo (MCMC) simulations, which improve mixing and convergence over that of the established component-wise Gibbs sampler. The SABRE method is then applied to datasets from FMDV and the Influenza virus in order to identify a number of known antigenic residue and to provide hypotheses of other potentially antigenic residues. We also demonstrate how the SABRE methods can be used to create accurate predictions of the important evolutionary changes of the FMDV serotypes. In this thesis we provide an extended version of the SABRE method, the eSABRE method, based on a latent variable model. The eSABRE method takes further into account the structure of the datasets for FMDV and the Influenza virus through the latent variable model and gives an improvement in the modelling of the error. We show how the eSABRE method outperforms the SABRE methods in simulation studies and propose a new information criterion for selecting the random effects factors that should be included in the eSABRE method; block integrated Widely Applicable Information Criterion (biWAIC). We demonstrate how biWAIC performs equally to two other methods for selecting the random effects factors and combine it with the eSABRE method to apply it to two large Influenza datasets. Inference in these large datasets is computationally infeasible with the SABRE methods, but as a result of the improved structure of the likelihood, we are able to show how the eSABRE method offers a computational improvement, leading it to be used on these datasets. The results of the eSABRE method show that we can use the method in a fully automatic manner to identify a large number of antigenic residues on a variety of the antigenic sites of two Influenza serotypes, as well as making predictions of a number of nearby sites that may also be antigenic and are worthy of further experiment investigation.

Determinación del comportamiento del riesgo cardiovascular en paciente postrasplante hepatico en Fundacion Cardioinfantil

El trasplante hepático es una opción terapéutica para enfermedad hepática avanzada cada vez más frecuente en Colombia. La sobrevida del 80% a 5 años conlleva a un aumento del riesgo cardiovascular y de eventos cardiovasculares, por esta razón esta investigación determina el comportamiento del riesgo cardiovascular en los pacientes con trasplante hepático de la Fundación Cardioinfantil, realizado en 3 años de seguimiento . Lo encontrado en esta investigación es que existe un aumento del riesgo cardiovascular a tres años en pacientes post trasplante hepático, estadísticamente significativo, principalmente secundario a hipertensión, diabetes e hipertrigliceridemia. El aumento es mayor a lo descrito en la población general, y similar a otros pacientes trasplantados, en un periodo de 5 años

Generalized hydrodynamics of a (1+1)-dimensional integrable scattering theory with roaming trajectories

The emergence of hydrodynamic features in off-equilibrium (1 + 1)-dimensional integrable quantum systems has been the object of increasing attention in recent years. In this Master Thesis, we combine Thermodynamic Bethe Ansatz (TBA) techniques for finite-temperature quantum field theories with the Generalized Hydrodynamics (GHD) picture to provide a theoretical and numerical analysis of Zamolodchikov’s staircase model both at thermal equilibrium and in inhomogeneous generalized Gibbs ensembles. The staircase model is a diagonal (1 + 1)-dimensional integrable scattering theory with the remarkable property of roaming between infinitely many critical points when moving along a renormalization group trajectory. Namely, the finite-temperature dimensionless ground-state energy of the system approaches the central charges of all the minimal unitary conformal field theories (CFTs) M_p as the temperature varies. Within the GHD framework we develop a detailed study of the staircase model’s hydrodynamics and compare its quite surprising features to those displayed by a class of non-diagonal massless models flowing between adjacent points in the M_p series. Finally, employing both TBA and GHD techniques, we generalize to higher-spin local and quasi-local conserved charges the results obtained by B. Doyon and D. Bernard [1] for the steady-state energy current in off-equilibrium conformal field theories.

Non perturbative aspects of non equilibrium physics in two dimensional models

The present manuscript focuses on out of equilibrium physics in two dimensional models. It has the purpose of presenting some results obtained as part of out of equilibrium dynamics in its non perturbative aspects. This can be understood in two different ways: the former is related to integrability, which is non perturbative by nature; the latter is related to emergence of phenomena in the out of equilibirum dynamics of non integrable models that are not accessible by standard perturbative techniques. In the study of out of equilibirum dynamics, two different protocols are used througout this work: the bipartitioning protocol, within the Generalised Hydrodynamics (GHD) framework, and the quantum quench protocol. With GHD machinery we study the Staircase Model, highlighting how the hydrodynamic picture sheds new light into the physics of Integrable Quantum Field Theories; with quench protocols we analyse different setups where a non-perturbative description is needed and various dynamical phenomena emerge, such as the manifistation of a dynamical Gibbs effect, confinement and the emergence of Bloch oscillations preventing thermalisation.