The generation and utilization of a cancer-oriented representation of the human transcriptome by using expressed sequence tags

Whereas genome sequencing defines the genetic potential of an organism, transcript sequencing defines the utilization of this potential and links the genome with most areas of biology. To exploit the information within the human genome in the fight against cancer, we have deposited some two million expressed sequence tags (ESTs) from human tumors and their corresponding normal tissues in the public databases. The data currently define approximate to23,500 genes, of which only approximate to1,250 are still represented only by ESTs. Examination of the EST coverage of known cancer-related (CR) genes reveals that <1% do not have corresponding ESTs, indicating that the representation of genes associated with commonly studied tumors is high. The careful recording of the origin of all ESTs we have produced has enabled detailed definition of where the genes they represent are expressed in the human body. More than 100,000 ESTs are available for seven tissues, indicating a surprising variability of gene usage that has led to the discovery of a significant number of genes with restricted expression, and that may thus be therapeutically useful. The ESTs also reveal novel nonsynonymous germline variants (although the one-pass nature of the data necessitates careful validation) and many alternatively spliced transcripts. Although widely exploited by the scientific community, vindicating our totally open source policy, the EST data generated still provide extensive information that remains to be systematically explored, and that may further facilitate progress toward both the understanding and treatment of human cancers.

Speciation of lead in seawater and river water by using Saccharomyces cerevisiae immobilized in agarose gel as a binding agent in the diffusive gradients in thin films technique

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

Paper-based diffusive gradients in thin films technique coupled to energy dispersive X-ray fluorescence spectrometry for the determination of labile Mn, Co, Ni, Cu, Zn and Pb in river water

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

Phase Transformation in Titania Nanocrystals by the Oriented Attachment Mechanism: The Role of the pH Value

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

Determination of labile inorganic and organic species of Al and Cu in river waters using the diffusive gradients in thin films technique

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

Use of Saccharomyces cerevisiae immobilized in agarose gel as a binding agent for diffusive gradients in thin films

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

Object oriented modeling of piston engines

This work reports a conception phase of a piston engine global model. The model objective is forecast the motor performance (power, torque and specific consumption as a function of rotation and environmental conditions). Global model or Zero-dimensional is based on flux balance through each engine component. The resulting differential equations represents a compressive unsteady flow, in which, all dimensional variables are areas or volumes. A review is presented first. The ordinary differential equation system is presented and a Runge-Kutta method is proposed to solve it numerically. The model includes the momentum conservation equation to link the gas dynamics with the engine moving parts rigid body mechanics. As an oriented to objects model the documentation follows the UML standard. A discussion about the class diagrams is presented, relating the classes with physical model related. The OOP approach allows evolution from simple models to most complex ones without total code rewrite. Copyright © 2001 Society of Automotive Engineers, Inc.

Modeling the growth of LT and TL-oriented fatigue cracks in longitudinally and transversely pre-strained Al 2524-T3 alloy

The aluminum alloy 2524 (Al-Cu-Mg) was developed during the 90s mainly to be employed in aircraft fuselage panels, replacing the standard Al 2024. In the present analysis the fatigue crack growth (FCG) behavior of 2524-T3 was investigated, regarding the influence of three parameters: load ratio, pre strain and crack plane orientation of the material. The pre strain of aluminum alloys is usually performed in order to obtain a more homogeneous precipitates distribution, accompanied by an increase in the yield strength. In this work, it was evaluated the resistance of Al 2524-T3 sheet samples to the fatigue crack growth, having L-T and T-L crack orientations. FCG tests were performed under constant amplitude loading at three distinct positive load ratios. The three material conditions were tested: as received(AR), pre strained longitudinally (SL) and transversally (ST) in relation to rolling direction. In order to describe FCG behavior, two-parameter kinetic equations were compared: a Paris-type potential model and a new exponential equation introduced in a previous work conducted by our research group. It was observed that the exponential model, which takes into account the deviations from linearity presented by da/dN versus AK data, describes more adequately the FCG behavior of Al 224-T3 in relation to load ratio, pre strain effects and crack plane orientation. © 2011 Published by Elsevier Ltd.

High-voltage electrophoretic deposition of preferentially oriented films from multiferroic YMn2O5 nanopowders

Processing of the YMn2O5 powder is very challenging, since it decomposes to YMnO3 and Mn3O4 at temperatures close to 1180 °C, while samples consolidation commonly demands high temperatures. The main goal of this work is to investigate a possibility to prepare thick films of YMn2O5, since their deposition generally requires significantly lower temperatures. Multiferroic YMn 2O5 was synthesized by the hydrothermal method from Y(CH3COO)3·xH2O, Mn(CH 3COO)2·4H2O and KMnO4 precursors. XRD, FE-SEM and TEM analysis showed that the obtained powder was monophasic, with orthorhombic crystal structure and columnar particle shape with mean diameter and length of around 20 and 50 nm, respectively. The obtained powder was suspended in isopropyl alcohol with addition of appropriate binder and deflocculant. This suspension was used for electrophoretic deposition of YMn2O5 thick films under the high-voltage conditions and electric fields ranging from 250 to 2125 V/cm. The films obtained at 1000 V/cm and higher electric fields showed good adhesion, particle packing, homogeneity and very low porosity. It was shown that the deposition in extremely high electric fields (KC=2125 V/cm) can influence the crystal orientation of the films, resulting in formation of preferentially oriented films. © 2012 Elsevier Ltd and Techna Group S.r.l.

The use of elevation map histograms for topographic heterogeneity analysis

Surface defects are extremely important in mechanical characterization of several different materials. Therefore, the analysis of surface finishing is essential for a further simulation of surface mechanical properties in a customized project in materials science and technology. One of the methods commonly employed for such purpose is the statistical mapping of different sample surface regions using the depth from focus technique. The analysis is usually performed directly from the elevation maps which are obtained from the digital image processing. In this paper, the possibility of quantifying the surface heterogeneity of Silicon Carbide porous ceramics by elevation map histograms is presented. The advantage of this technique is that it allows the qualitative or quantitative verification of all surface image fields that cannot be done by using the Surface Plot plugin of image J™ platform commonly used in digital image processing. © 2012 Springer Science+Business Media, LLC.

Lower Permian stems as fluvial paleocurrent indicators of the Parnaíba Basin, northern Brazil

A comprehensive biostratinomic study was carried out with abundant stems from the Lower Permian Motuca Formation of the intracratonic Parnaíba Basin, central-north Brazil. The fossils represent a rare tropical to subtropical paleofloristic record in north Gondwana. Tree ferns dominate the assemblages (mainly Tietea, secondarily Psaronius), followed by gymnosperms, sphenophytes, other ferns and rare lycophytes. They are silica-permineralized, commonly reach 4 m length (exceptionally more than 10 m), lie loosely on the ground or are embedded in the original sandstone or siltstone matrix, and attract particular attention because of their frequent parallel attitudes. Many tree fern stems present the original straight cylindrical to slightly conical forms, other are somewhat flattened, and the gymnosperm stems are usually more irregular. Measurements of stem orientations and dimensions were made in three sites approximately aligned in a W-E direction in a distance of 27.3 km at the conservation unit Tocantins Fossil Trees Natural Monument In the eastern site, rose diagrams for 54 stems indicate a relatively narrow azimuthal range to SE. These stems commonly present attached basal bulbous root mantles and thin cylindrical sandstone envelopes, which sometimes hold, almost adjacent to the lateral stem surface, permineralized fern pinnae and other small plant fragments. In the more central site, 82 measured stems are preferentially oriented in the SW-NE direction, the proportion of gymnosperms is higher and cross-stratification sets of sandstones indicate paleocurrents mainly to NE and secondarily to SE. In the western site, most of the 42 measured stems lie in E-W positions. The predominantly sandy succession, where the fossil stems are best represented, evidences a braided fluvial system under semiarid conditions. The low plant diversity, some xeromorphic features and the supposedly almost syndepositional silica impregnation of the plants are coherent with marked dry seasons. Thick mudstones and some coquinites below and above the sandy interval may represent lacustrine facies formed in probably more humid conditions. The taphonomic history of the preserved plants began with exceptional storms that caused fast-flowing high water in channels and far into the floodplains. In the eastern site region, many tree ferns only fell, thus sometimes covering and protecting plant litter and leaves from further fragmentation. Assemblages of the central and western sites suggest that the trees were uprooted and transported in suspension (floating) parallel to the flow. Heavier ends of stems (according to their form or because of attached basal bulbous root mantle or large apical fronds) were oriented to upstream because of inertial forces. During falling water stage, the stems were stranded on riverbanks, usually maintaining the previous transport orientation, and were slightly buried. The perpendicular or oblique positions of some stems may have been caused by interference with other stems or shallow bars. Rare observed stems were apparently waterlogged before the final depositional process and transported as bedload. The differences of interpreted channel orientations between the three sites are expected in a braided fluvial system, considering the very low gradients of the basin and the work scale in the order of tens of kilometers. The mean direction of the drainage probably was to east and the flows apparently became weaker downstream. This study seems to provide reliable data for paleocurrent interpretations, especially considering areas with scarce preserved sedimentary structures. © 2013 Elsevier Ltd.

Study of Brazilian commercial Oriented Strand Board panels using stress wave

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Structural and electrical properties of LaNiO3 thin films grown on (100) and (001) oriented SrLaAlO4 substrates by chemical solution deposition method

LaNiO3 thin films were deposited on SrLaAlO4 (1 0 0) and SrLaAlO4 (0 0 1) single crystal substrates by a chemical solution deposition method and heat-treated in oxygen atmosphere at 700° C in tube oven. Structural, morphological, and electrical properties of the LaNiO 3 thin films were characterized by X-ray diffraction (XRD), atomic force microscopy (AFM), field emission scanning electron microscopy (FE-SEM), and electrical resistivity as temperature function (Hall measurements). The X-ray diffraction data indicated good crystallinity and a structural preferential orientation. The LaNiO3 thin films have a very flat surface and no droplet was found on their surfaces. Samples of LaNiO3 grown onto (1 0 0) and (0 0 1) oriented SrLaAlO4 single crystal substrates reveled average grain size by AFM approximately 15-30 nm and 20-35 nm, respectively. Transport characteristics observed were clearly dependent upon the substrate orientation which exhibited a metal-to-insulator transition. The underlying mechanism is a result of competition between the mobility edge and the Fermi energy through the occupation of electron states which in turn is controlled by the disorder level induced by different growth surfaces. © 2013 Elsevier Ltd and Techna Group S.r.l.

Analysis of the lightning attractive radius of power transmission lines through the use of a physically-oriented model

Models of different degrees of complexity are found in the literature for the estimation of lightning striking distances and attractive radius of objects and structures. However, besides the oversimplifications of the physical nature of the lightning discharge on which most of them are based, till recently the tridimensional structure configuration could not be considered. This is an important limitation, as edges and other details of the object affect the electric field and, consequently, the upward leader initiation. Within this context, the Self-consistent leader initiation and propagation model (SLIM) proposed by Becerra and Cooray is state-of-the-art leader inception and propagation leader model based on the physics of leader discharges which enables the tridimensional geometry of the structure to be taken into account. In this paper, the model is used for estimating the striking distance and attractive radius of power transmission lines. The results are compared with those obtained from the electrogeometric and Eriksson's models. © 2003-2012 IEEE.

Determination of in situ speciation of manganese in treated acid mine drainage water by using multiple diffusive gradients in thin films devices

Acid mine drainage (AMD) is a serious environmental problem that creates acidic solution with high Mn concentrations. The speciation of residual Mn from AMD after an active treatment involving the addition of a neutralizing agent can reliably evaluate the treatment efficiency and provide knowledge of the Mn species being inputted into the environment. The aim of this study was to evaluate the in situ lability and speciation of Mn using the diffusive gradients in thin films (DGT) technique with treated drainage water from a uranium mine (TAMD). DGT devices with different binding phases (Chelex-100 and P81 and DE81membranes) were used to perform the in situ speciation of Mn. A comparison of the results from deploying DGT in the laboratory and in situ shows that the speciation of Mn in TAMD should be performed in situ. Linear deployment curves (from in situ experiments) indicate that the DGT device containing the Chelex-100 binding phase can be used to evaluate Mn lability in TAMD. The labile Mn fraction (from in situ measurements) obtained using the device containing the Chelex-100 resin ranged from 63 to 81% of the total Mn concentration and, when compared to the speciation obtained using the CHEAQS software, indicated that this device was capable of uptaking the free Mn2+ and a portion of the MnSO4(aq). The values obtained using the DGT technique were compared to those from on site solid phase extraction, and a good agreement was found between the results. The amount of negative Mn species sampled by DE81 device was insignificant (<1.5%) for all of the sites. Sites containing a relatively small amount of Ca (<40mgL-1) and measured using devices containing the P81 membrane agreed with the concentration predicted by the CHEAQS software for positive Mn species (Mn2+ and Mn(OH)+). Nevertheless, the speciation obtained using the CHEAQS software indicated that the concentrations of positive Mn species were underestimated for sites with relatively high Ca concentrations (>150mgL-1), which take place due to the saturation of binding sites in the P81 membrane. © 2013 Elsevier B.V.