Transcription factor map alignment of promoter regions

We address the problem of comparing and characterizing the promoter regions of genes with similar expression patterns. This remains a challenging problem in sequence analysis, because often the promoter regions of co-expressed genes do not show discernible sequence conservation. In our approach, thus, we have not directly compared the nucleotide sequence of promoters. Instead, we have obtained predictions of transcription factor binding sites, annotated the predicted sites with the labels of the corresponding binding factors, and aligned the resulting sequences of labels—to which we refer here as transcription factor maps (TF-maps). To obtain the global pairwise alignment of two TF-maps, we have adapted an algorithm initially developed to align restriction enzyme maps. We have optimized the parameters of the algorithm in a small, but well-curated, collection of human–mouse orthologous gene pairs. Results in this dataset, as well as in an independent much larger dataset from the CISRED database, indicate that TF-map alignments are able to uncover conserved regulatory elements, which cannot be detected by the typical sequence alignments.

Contribution à la cartographie géomorphologique de la dynamique sédimentaire des petits bassins versants torrentiels

Les laves torrentielles sont l'un des vecteurs majeurs de sédiments en milieu montagneux. Leur comportement hydrogéomorphologique est contrôlé par des facteurs géologique, géomorphologique, topographique, hydrologique, climatique et anthropique. Si, en Europe, la recherche s'est plus focalisée sur les aspects hydrologiques que géomorphologiques de ces phénomènes, l'identification des volumes de sédiments potentiellement mobilisables au sein de petits systèmes torrentiels et des processus responsables de leur transfert est d'une importance très grande en termes d'aménagement du territoire et de gestion des dangers naturels. De plus, une corrélation entre des événements pluviométriques et l'occurrence de laves torrentielles n'est pas toujours établie et de nombreux événements torrentiels semblent se déclencher lorsqu'un seuil géomorphologique intrinsèque (degré de remplissage du chenal) au cours d'eau est atteint.Une méthodologie pragmatique a été développée pour cartographier les stocks sédimentaires constituant une source de matériaux pour les laves torrentielles, comme outil préliminaire à la quantification des volumes transportés par ces phénomènes. La méthode s'appuie sur des données dérivées directement d'analyses en environnement SIG réalisées sur des modèles numériques d'altitude de haute précision, de mesures de terrain et d'interprétation de photographies aériennes. La méthode a été conçue pour évaluer la dynamique des transferts sédimentaires, en prenant en compte le rôle des différents réservoirs sédimentaires, par l'application du concept de cascade sédimentaire sous un angle cartographique.Les processus de transferts sédimentaires ont été étudiés dans deux bassins versants des Alpes suisses (torrent du Bruchi, à Blatten beiNaters et torrent du Meretschibach, à Agarn). La cartographie géomorphologique a été couplée avec des mesures complémentaires permettant d'estimer les flux sédimentaires et les taux d'érosion (traçages de peinture, piquets de dénudation et utilisation du LiDAR terrestre). La méthode proposée se révèle innovatrice en comparaison avec la plupart des systèmes de légendes géomorphologiques existants, qui ne sont souvent pas adaptés pour cartographier de manière satisfaisante les systèmes géomorphologiques complexes et actifs que sont les bassins torrentiels. L'intérêt de cette méthode est qu'elle permet l'établissement d'une cascade sédimentaire, mais uniquement pour des systèmes où l'occurrence d'une lave torrentielle est contrôlé par le degré de remplissage en matériaux du chenal. Par ailleurs, le produit cartographique ne peut être directement utilisé pour la création de cartes de dangers - axées sur les zones de dépôt - mais revêt un intérêt pour la mise en place de mesures de correction et pour l'installation de systèmes de monitoring ou d'alerte.La deuxième partie de ce travail de recherche est consacrée à la cartographie géomorphologique. Une analyse a porté sur un échantillon de 146 cartes ou systèmes de légende datant des années 1950 à 2009 et réalisés dans plus de 40 pays. Cette analyse a permis de mettre en évidence la diversité des applications et des techniques d'élaboration des cartes géomorphologiques. - Debris flows are one of the most important vectors of sediment transfer in mountainous areas. Their hydro-geomorphological behaviour is conditioned by geological, geomorphological, topographical, hydrological, climatic and anthropic factors. European research in torrential systems has focused more on hydrological processes than on geomorphological processes acting as debris flow triggers. Nevertheless, the identification of sediment volumes that have the potential to be mobilised in small torrential systems, as well as the recognition of processes responsible for their mobilisation and transfer within the torrential system, are important in terms of land-use planning and natural hazard management. Moreover, a correlation between rainfall and debris flow occurrence is not always established and a number of debris flows seems to occur when a poorly understood geomorphological threshold is reached.A pragmatic methodology has been developed for mapping sediment storages that may constitute source zone of bed load transport and debris flows as a preliminary tool before quantifying their volumes. It is based on data directly derived from GIS analysis using high resolution DEM's, field measurements and aerial photograph interpretations. It has been conceived to estimate sediment transfer dynamics, taking into account the role of different sediment stores in the torrential system applying the concept of "sediment cascade" in a cartographic point of view.Sediment transfer processes were investigated in two small catchments in the Swiss Alps (Bruchi torrent, Blatten bei Naters and Meretschibach torrent, Agarn). Thorough field geomorphological mapping coupled with complementary measurements were conducted to estimate sediment fluxes and denudation rates, using various methods (reference coloured lines, wooden markers and terrestrial LiDAR). The proposed geomorphological mapping methodology is quite innovative in comparison with most legend systems that are not adequate for mapping active and complex geomorphological systems such as debris flow catchments. The interest of this mapping method is that it allows the concept of sediment cascade to be spatially implemented but only for supply-limited systems. The map cannot be used directly for the creation of hazard maps, focused on the deposition areas, but for the design of correction measures and the implementation of monitoring and warning systems.The second part of this work focuses on geomorphological mapping. An analysis of a sample of 146 (extracts of) maps or legend systems dating from the middle of the 20th century to 2009 - realised in more than 40 different countries - was carried out. Even if this study is not exhaustive, it shows a clear renewed interest for the discipline worldwide. It highlights the diversity of applications, techniques (scale, colours and symbology) used for their conception.

Estudi per a una interfície d'ajuda a daltònics en la interpretació de mapes de metro

En aquest projecte fem un estudi de diferents mètodes per a la segmentació i extracció de línies de mapes de metro com a suport per a daltònics. Hem aplicat dos mètodes amb intervenció de l’usuari i cinc mètodes automàtics on fem servir K-means per a la segmentació de color i Hough per a l’extracció de línies. Dels mètodes amb intervenció obtenim millors resultats amb un mètode d’assignació aproximada del color, i entre els autoàatics tenim com a millor una solució ad-hoc sense paràmetres aplicada sobre l’espai RGB. D’acord amb els resultats experimentals, aquests mètodes ens permeten fer una bona segmentació i extracció de les línies de metro.

Loviisan ydinvoimalaitoksen kaapelireittien tiedonhallinnan kehittäminen paloriskitutkimusta varten

Tässä diplomityössä kehitetään Loviisan voimalaitoksen todennäköisyyspohjaisen paloriskianalyysin kaapelitietokantaa tulevaisuuden haasteita varten. Tietokannan kehittämistä varten tutustutaan todennäköisyyspohjaiseen riskianalyysiin varsin-kin paloriskianalyysin osalta. Käytännönläheisempää kehittämistä varten tutustu-taan voimalaitoksella nykyisin käytössä oleviin kaapelitietokantoihin: paloriski-tutkimusta varten laadittuun PSA-ELTIEen, kunnossapidon tiedonhallintajärjes-telmä LOMAXiin, sähkö- ja automaatiosuunnitteluyksikköjen arkistoihin sekä automaatiouudistuksen tietokantaan. Tietokannan käytännönläheisempien ominai-suuksien selvittämiseksi voimalaitoksella kokeiltiin kenttätarkastusmenetelmää, joka on ensisijainen kaapelikartoitusmenetelmä. Tietokantoihin tutustumisen perusteella vaihtoehtoisiksi tulevaisuuden tietokan-noiksi mietittiin LOMAXia, PSA-ELTIEtä tai uutta tietokantaa. Tulevaisuuden tietokantavaihtoehdoksi on päädytty ehdottamaan LOMAXia, joka vaatii vähem-män muutoksia muihin vaihtoehtoihin nähden. Tällainen laajalti käytössä oleva yhteinen tietokanta mahdollistaa sen, että tiedot ovat helpommin ja varmemmin kaikkien niitä tarvitsevien käytettävissä ja asiantuntijoiden muokattavissa, millä myös varmistetaan tietojen oikeellisuutta ja pysymistä ajan tasalla. Tulevaan LOMAX päivitykseen on ehdotettu tarpeellisia tietokenttien lisäyksiä ja kaapeli-hierarkian parantamista kaapelitietokannaksi käyttöönottamista varten.

A two-armed pattern in flickering maps of the nova-like variable UU aquarii

We report the analysis of a uniform sample of 31 light curves of the nova-like variable UU Aqr with eclipse-mapping techniques. The data were combined to derive eclipse maps of the average steady-light component, the long-term brightness changes, and the low- and high-frequency flickering components. The long-term variability responsible for the ""low-brightness`` and ""high-brightness`` states is explained in terms of the response of a viscous disk to changes of 20%-50% in the mass transfer rate from the donor star. Low- and high-frequency flickering maps are dominated by emission from two asymmetric arcs reminiscent of those seen in the outbursting dwarf nova IP Peg, and they are similarly interpreted as manifestations of a tidally induced spiral shock wave in the outer regions of a large accretion disk. The asymmetric arcs are also seen in the map of the steady light aside from the broad brightness distribution of a roughly steady-state disk. The arcs account for 25% of the steady-light flux and are a long-lasting feature in the accretion disk of UU Aqr. We infer an opening angle of 10 degrees +/- 3 degrees for the spiral arcs. The results suggest that the flickering in UU Aqr is caused by turbulence generated after the collision of disk gas with the density-enhanced spiral wave in the accretion disk.

Comparison of learning between Digital gallery and Hands-on Laboratory

This thesis has been done in ROM (Royal Ontario Museum) located in Toronto Canada. It focuses on learning in two parts of the museum. It tries to find out how much each part is effective in terms of learning. Studies have been done in the Digital gallery, which has been equipped with digital video projector and workstation that allows visitors to interact with the collections in 2 or 3 dimensional spaces while they are watching the presenting film. The rest of the study was in Hands-on laboratory, which allows students to examine artifacts and discuss their findings .The method was used in this research is Concept mapping .In Digital gallery, 24 schools surveys in the form of pre-post- test by help of the concept mapping method has been done. In Hands-on laboratory, 12 schools have been studied by using the combination of interviewing and written pre post-test of concept mapping.

Mapeamento com Sonar Usando Grade de Ocupação baseado em Modelagem Probabilística

In this work, we propose a probabilistic mapping method with the mapped environment represented through a modified occupancy grid. The main idea of the proposed method is to allow a mobile robot to construct in a systematic and incremental way the geometry of the underlying space, obtaining at the end a complete environment map. As a consequence, the robot can move in the environment in a safe way, based on a confidence value of data obtained from its perceptive system. The map is represented in a coherent way, according to its sensory data, being these noisy or not, that comes from exterior and proprioceptive sensors of the robot. Characteristic noise incorporated in the data from these sensors are treated by probabilistic modeling in such a way that their effects can be visible in the final result of the mapping process. The results of performed experiments indicate the viability of the methodology and its applicability in the area of autonomous mobile robotics, thus being an contribution to the field

Desenvolvimento de antenas de microfita com aberturas nos patches condutores através do método da segmentação

Microstrip antennas are widely used in modern telecommunication systems. This is particularly due to the great variety of geometries and because they are easily built and integrated to other high frequency devices and circuits. This work presents a study of the properties of the microstrip antenna with an aperture impressed in the conducting patch. Besides, the analysis is performed for isotropic and anisotropic dielectric substrates. The Multiport Network Model MNM is used in combination with the Segmentation Method and the Greens function technique in the analysis of the considered microstrip antenna geometries. The numerical analysis is performed by using the boundary value problem solution, by considering separately the impedance matrix of the structure segments. The analysis for the complete structure is implemented by choosing properly the number and location of the neighboor element ports. The numerial analysis is performed for the following antenna geometries: resonant cavity, microstrip rectangular patch antenna, and microstrip rectangular patch antenna with aperture. The analysis is firstly developed for microstrip antennas on isotropic substrates, and then extended to the case of microstrip antennas on anisotropic substrates by using a Mapping Method. The experimental work is described and related to the development of several prototypes of rectangular microstrip patch antennas wtih and without rectangular apertures. A good agreement was observed between the simulated and measured results. Thereafter, a good agreement was also observed between the results of this work and those shown in literature for microstrip antennas on isotropic substrates. Furthermore, results are proposed for rectangular microstrip patch antennas wtih rectangular apertures in the conducting patch

Quantitative trait loci associated with chemical composition of the chicken carcass

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)

Zoneamento do parque ecológico de ourinhos SP

The aim of this study was to carry out a zoning in the municipal ecological park of Ourinhos, SP, located southwest of São Paulo State, aiming to subsidize the planning and management of this area. With this purpose it was made an inventory of the landscape resources of this park with hypsometry, declivity, use of soil and zoning mappings. From this zoning, we analyzed the possibilities of implementing purposes of use, with the objective of preserving this area, minimizing the negative environmental impacts. Thus, this research was of extreme importance, since it allowed to identify and rank, in the territory, areas or sectors that are priority to the development of activities, as well as contribute to the conservation of natural and socio-cultural heritage.

Espacialização das estimativas de contaminação de águas subterrâneas por Tebuthiuron

Improper use of pesticides can lead to significant environmental impacts such as, contamination of environmental compartments, being the aquatic compartments the most vulnerable. In this context, the spatialization of pesticides concentrations estimative in groundwater provides important insights for decision making in managing and monitoring pesticides use. This study aimed to spatialize estimatives of groundwater contamination by Tebuthiuron, from different irrigation depths in the Rio Pardo basin, Pardinho-SP, Brazil. The simulations were performed using the ARAquá computer system, considering 0mm, 200 mm and 400 mm annual irrigation depths. Geostatistical techniques were used to obtain the spatial distribution of the simulated estimative. Tebuthiuron maps estimating concentration in groundwater were obtained by Kriging interpolation method, and indicated the areas with high potential for groundwater contamination. Considering all the simulations, it was concluded that there was no risk of groundwater contamination by Tebuthiuron in the study area.

Seleção de informações de guia de rota para a concepção de sistemas de navegação

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Militante... Já viu, né? A homofobia nos processos de subjetivação dos militantes do movimento LGBT

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)

Carta de sensibilidade ambiental para derramamentos de óleo em rodovias: proposta aplicada a Estrada dos Tamoios (SP-099)

Pós-graduação em Geociências e Meio Ambiente - IGCE