Mathematical modeling and analysis of the interaction of populations of bacteria and bacteriophages within chicken intestine

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Modeling of hybrid systems by piecewise decomposition

Piecewise linear models systems arise as mathematical models of systems in many practical applications, often from linearization for nonlinear systems. There are two main approaches of dealing with these systems according to their continuous or discrete-time aspects. We propose an approach which is based on the state transformation, more particularly the partition of the phase portrait in different regions where each subregion is modeled as a two-dimensional linear time invariant system. Then the Takagi-Sugeno model, which is a combination of local model is calculated. The simulation results show that the Alpha partition is well-suited for dealing with such a system

Modelat d'edificis basats en extrusions procedurals per a skylineEngine

Actualment ens trobem en un món on tot gira al voltant de les noves tecnologies, i un pilar fonamental és l'oci i l'entreteniment. Això engloba principalment les indústries del cinema, videojocs i realitat virtual. Un dels problemes que tenen aquestes indústries és com crear l'escenari on es produeix la història. L'objectiu d'aquest projecte de final de carrera és crear una eina integrada al skylineEngine, que serveixi per crear edificis de manera procedural, on l'usuari pugui definir l'estètica d'aquest edifici, introduint la seva planta i els perfils adequats. El que s'implementarà serà una eina de modelatge per a dissenyadors, que a partir d'una planta i perfils pugui crear l'edifici.Aquest projecte es desenvoluparà a sobre del mòdul de generació d'edificis del skylineEngine, una eina pel modelatge de ciutats que s'executa sobre el Houdini 3D, que és una plataforma genèrica pel modelatge procedural d'objectes.El desenvolupament d'aquest projecte implica:• Estudi de la plataforma de desenvolupament Houdini 3D i de les llibreries necessàries per la incorporació de scripts Python. Estudi de les EEDD internes de Houdini.• Aprendre i manejar el llenguatge de programació Python.• Estudi del codi de l'article Interactive Architectural Modeling with Procedural Extrusions, per en Tom Kelly i en Peter Wonka, publicat a la revista ACM Transactions on Graphics (2011).• Desenvolupament d'algorismes de conversió de geometria d'una estructura tipus face-vertex a una de tipus half-edge, i viceversa.• Modificació del codi Java per acceptar crides sense interfície d'usuari i amb estructures de dades generades des de Python.• Aprendre el funcionament de la llibreria JPype per permetre enllaçar el Java dins el Python.• Estudi del skylineEngine i de les llibreries per la creació d'edificis.• Integració del resultat dintre del skylineEngine.• Verificació i ajust de les regles i paràmetres de la simulació per a diferents edificis

Anàlisi de l'aplicació Geomedia 3D

Anàlisi de les diferents funcionalitats de l'aplicació Geomedia 3D i la seva utilitat dins del terreny dels sistemes d'informació geogràfica.

Continuum formalism for modeling growing networks with deletion of nodes

We present a continuum formalism for modeling growing random networks under addition and deletion of nodes based on a differential mass balance equation. As examples of its applicability, we obtain new results on the degree distribution for growing networks with a uniform attachment and deletion of nodes, and complete some recent results on growing networks with preferential attachment and uniform removal

Disseny i modelació en 3D d'un habitacle en le jaciment ibèric d'Els Vilars

L'objectiu del projecte és reconstruir un habitacle del jaciment ibèric dels Vilars amb els objectes de l'època pertinents. Tot això servirà per obtenir una visió de la vida i les costums dels pobladors ibèrics.

Anàlisi de l'aplicació GeoMedia 3D

Treball de final de carrera sobre els sistemes d'informació geogràfica on s'analitza l'eina GeoMedia 3D i la seva aplicació als SIG 3D. L'anàlisi està fet desenvolupant un model 3D de la ciutat de Tarragona.

Anàlisi de l'aplicació GeoMedia 3D

Aquest treball es centra en la utilització i aplicació de les tecnologies dels sistemes d'informació geogràfica. En concret es realitza una pràctica sobre la ciutat de Lleida per poder veure certs edificis que compleixen una sèrie de premisses. En el projecte es fa una anàlisi de l'aplicació GeoMedia 3D.

Creación de una demo 3D mediante gráficos procedurales

Aquest projecte consisteix en el desenvolupament d’una demo 3D utilitzant exclusivament gràfics procedurals per tal d’avaluar la seva viabilitat en aplicacions més complexes com els videojocs. En aquesta aplicació es genera un terreny aleatori explorable amb vegetació i textures creades proceduralment.

Genetic and genomic analysis modeling of germline c-MYC overexpression and cancer susceptibility

Background: Germline genetic variation is associated with the differential expression of many human genes. The phenotypic effects of this type of variation may be important when considering susceptibility to common genetic diseases. Three regions at 8q24 have recently been identified to independently confer risk of prostate cancer. Variation at 8q24 has also recently been associated with risk of breast and colorectal cancer. However, none of the risk variants map at or relatively close to known genes, with c-MYC mapping a few hundred kilobases distally. Results: This study identifies cis-regulators of germline c-MYC expression in immortalized lymphocytes of HapMap individuals. Quantitative analysis of c-MYC expression in normal prostate tissues suggests an association between overexpression and variants in Region 1 of prostate cancer risk. Somatic c-MYC overexpression correlates with prostate cancer progression and more aggressive tumor forms, which was also a pathological variable associated with Region 1. Expression profiling analysis and modeling of transcriptional regulatory networks predicts a functional association between MYC and the prostate tumor suppressor KLF6. Analysis of MYC/Myc-driven cell transformation and tumorigenesis substantiates a model in which MYC overexpression promotes transformation by down-regulating KLF6. In this model, a feedback loop through E-cadherin down-regulation causes further transactivation of c-MYC.Conclusion: This study proposes that variation at putative 8q24 cis-regulator(s) of transcription can significantly alter germline c-MYC expression levels and, thus, contribute to prostate cancer susceptibility by down-regulating the prostate tumor suppressor KLF6 gene.

Patient-specific computational hemodynamics of intracranial aneurysms from 3D rotational angiography and CT angiography: an in vivo reproducibility study

Patient-specific simulations of the hemodynamics in intracranial aneurysms can be constructed by using image-based vascular models and CFD techniques. This work evaluates the impact of the choice of imaging technique on these simulations

Temporal diffeomorphic free-form deformation: application to motion and strain estimation from 3D echocardiography

This paper presents a new registration algorithm, called Temporal Di eomorphic Free Form Deformation (TDFFD), and its application to motion and strain quanti cation from a sequence of 3D ultrasound (US) images. The originality of our approach resides in enforcing time consistency by representing the 4D velocity eld as the sum of continuous spatiotemporal B-Spline kernels. The spatiotemporal displacement eld is then recovered through forward Eulerian integration of the non-stationary velocity eld. The strain tensor iscomputed locally using the spatial derivatives of the reconstructed displacement eld. The energy functional considered in this paper weighs two terms: the image similarity and a regularization term. The image similarity metric is the sum of squared di erences between the intensities of each frame and a reference one. Any frame in the sequence can be chosen as reference. The regularization term is based on theincompressibility of myocardial tissue. TDFFD was compared to pairwise 3D FFD and 3D+t FFD, bothon displacement and velocity elds, on a set of synthetic 3D US images with di erent noise levels. TDFFDshowed increased robustness to noise compared to these two state-of-the-art algorithms. TDFFD also proved to be more resistant to a reduced temporal resolution when decimating this synthetic sequence. Finally, this synthetic dataset was used to determine optimal settings of the TDFFD algorithm. Subsequently, TDFFDwas applied to a database of cardiac 3D US images of the left ventricle acquired from 9 healthy volunteers and 13 patients treated by Cardiac Resynchronization Therapy (CRT). On healthy cases, uniform strain patterns were observed over all myocardial segments, as physiologically expected. On all CRT patients, theimprovement in synchrony of regional longitudinal strain correlated with CRT clinical outcome as quanti ed by the reduction of end-systolic left ventricular volume at follow-up (6 and 12 months), showing the potential of the proposed algorithm for the assessment of CRT.

Dynamic estimation of three-dimensional cerebrovascular deformation from rotational angiography

Purpose: The objective of this study is to investigate the feasibility of detecting and quantifying 3D cerebrovascular wall motion from a single 3D rotational x-ray angiography (3DRA) acquisition within a clinically acceptable time and computing from the estimated motion field for the further biomechanical modeling of the cerebrovascular wall. Methods: The whole motion cycle of the cerebral vasculature is modeled using a 4D B-spline transformation, which is estimated from a 4D to 2D + t image registration framework. The registration is performed by optimizing a single similarity metric between the entire 2D + t measured projection sequence and the corresponding forward projections of the deformed volume at their exact time instants. The joint use of two acceleration strategies, together with their implementation on graphics processing units, is also proposed so as to reach computation times close to clinical requirements. For further characterizing vessel wall properties, an approximation of the wall thickness changes is obtained through a strain calculation. Results: Evaluation on in silico and in vitro pulsating phantom aneurysms demonstrated an accurate estimation of wall motion curves. In general, the error was below 10% of the maximum pulsation, even in the situation when substantial inhomogeneous intensity pattern was present. Experiments on in vivo data provided realistic aneurysm and vessel wall motion estimates, whereas in regions where motion was neither visible nor anatomically possible, no motion was detected. The use of the acceleration strategies enabled completing the estimation process for one entire cycle in 5-10 min without degrading the overall performance. The strain map extracted from our motion estimation provided a realistic deformation measure of the vessel wall. Conclusions: The authors' technique has demonstrated that it can provide accurate and robust 4D estimates of cerebrovascular wall motion within a clinically acceptable time, although it has to be applied to a larger patient population prior to possible wide application to routine endovascular procedures. In particular, for the first time, this feasibility study has shown that in vivo cerebrovascular motion can be obtained intraprocedurally from a 3DRA acquisition. Results have also shown the potential of performing strain analysis using this imaging modality, thus making possible for the future modeling of biomechanical properties of the vascular wall.

Student modeling based on fuzzy inference mechanisms

The paper presents a competence-based instructional design system and a way to provide a personalization of navigation in the course content. The navigation aid tool builds on the competence graph and the student model, which includes the elements of uncertainty in the assessment of students. An individualized navigation graph is constructed for each student, suggesting the competences the student is more prepared to study. We use fuzzy set theory for dealing with uncertainty. The marks of the assessment tests are transformed into linguistic terms and used for assigning values to linguistic variables. For each competence, the level of difficulty and the level of knowing its prerequisites are calculated based on the assessment marks. Using these linguistic variables and approximate reasoning (fuzzy IF-THEN rules), a crisp category is assigned to each competence regarding its level of recommendation.