482 research outputs found
Statistical Approach to Fuzzy Cognitive Maps
Fuzzy cognitive maps are studied from statistical standpoint. An analogy between these maps and linear regression and logistic regression models is drawn. Practical examples are also provided.Peer reviewe
Correlation of pre-operative cancer imaging techniques with post-operative gross and microscopic pathology images
In this paper, different algorithms for volume reconstruction from tomographic cross-sectional pathology slices are described and tested. A tissue-mimicking phantom made with a mixture of agar and aluminium oxide was sliced at different thickness as per pathological standard guidelines. Phantom model was also virtually sliced and reconstructed in software. Results showed that shape-based spline interpolation method was the most precise, but generated a volume underestimation of 0.5%
Large-scale Graphitic Thin Films Synthesized on Ni and Transferred to Insulators: Structural and Electronic Properties
We present a comprehensive study of the structural and electronic properties
of ultrathin films containing graphene layers synthesized by chemical vapor
deposition (CVD) based surface segregation on polycrystalline Ni foils then
transferred onto insulating SiO2/Si substrates. Films of size up to several
mm's have been synthesized. Structural characterizations by atomic force
microscopy (AFM), scanning tunneling microscopy (STM), cross-sectional
transmission electron microscopy (XTEM) and Raman spectroscopy confirm that
such large scale graphitic thin films (GTF) contain both thick graphite regions
and thin regions of few layer graphene. The films also contain many wrinkles,
with sharply-bent tips and dislocations revealed by XTEM, yielding insights on
the growth and buckling processes of the GTF. Measurements on mm-scale
back-gated transistor devices fabricated from the transferred GTF show
ambipolar field effect with resistance modulation ~50% and carrier mobilities
reaching ~2000 cm^2/Vs. We also demonstrate quantum transport of carriers with
phase coherence length over 0.2 m from the observation of 2D weak
localization in low temperature magneto-transport measurements. Our results
show that despite the non-uniformity and surface roughness, such large-scale,
flexible thin films can have electronic properties promising for device
applications.Comment: This version (as published) contains additional data, such as cross
sectional TEM image
The Catalytic Mechanism of a Natural Diels-Alderase Revealed in Molecular Detail
The Diels-Alder reaction, a [4 + 2] cycloaddition of a conjugated diene to a dienophile, is one of the most powerful reactions in synthetic chemistry. Biocatalysts capable of unlocking new and efficient Diels-Alder reactions would have major impact. Here we present a molecular-level description of the reaction mechanism of the spirotetronate cyclase AbyU, an enzyme shown here to be a bona fide natural Diels-Alderase. Using enzyme assays, X-ray crystal structures, and simulations of the reaction in the enzyme, we reveal how linear substrate chains are contorted within the AbyU active site to facilitate a transannular pericyclic reaction. This study provides compelling evidence for the existence of a natural enzyme evolved to catalyze a Diels-Alder reaction and shows how catalysis is achieved
Genetic transformation of Citrus sinensis with Citrus tristeza virus (CTV) derived sequences and reaction of transgenic lines to CTV infection
Transgenic Citrus sinensis (L.) Osb. plants, cvs. Valencia and Hamlin, expressing Citrus tristeza virus (CTV) derived sequences were obtained by genetic transformation. The gene constructs were pCTV-CP containing the 25 kDa major capsid protein gene (CTV-CP), pCTV-dsCP containing the same CTV-CP gene in an intron-spliced hairpin construct, and pCTV-CS containing a 559 nt conserved region of the CTV genome. The transgenic lines were identified by PCR and the transgene integration was confirmed by Southern blot. Transgene mRNA could be detected in most transgenic lines containing pCTV-CP or pCTV-CS transgene. The mRNA of pCTV-dsCP transgene was almost undetectable, with very light bands in most analyzed plants. The transgene transcription appears to be closely linked to the type of gene construct. The virus challenge assays reveals that all transgenic lines were infected. However, it was possible to identify propagated clones of transgenic plants of both cultivars studied with a low virus titer, with values similar to the non-inoculated plants (negative control). These results suggested that the transgenic plants present some level of resistance to virus replication. The higher number of clones with low virus titer and where mRNA could not be detected or was presented in a very light band was found for pCTV-dsCP-derived transgenic lines561162166CONSELHO NACIONAL DE DESENVOLVIMENTO CIENTÍFICO E TECNOLÓGICO - CNPQCOORDENAÇÃO DE APERFEIÇOAMENTO DE PESSOAL DE NÍVEL SUPERIOR - CAPESFUNDAÇÃO DE AMPARO À PESQUISA DO ESTADO DE SÃO PAULO - FAPESPsem informaçã
Synthetic RNA Silencing of Actinorhodin Biosynthesis in Streptomyces coelicolor A3(2)
We demonstrate the first application of synthetic RNA gene silencers in Streptomyces coelicolor A3(2). Peptide nucleic acid and expressed antisense RNA silencers successfully inhibited actinorhodin production. Synthetic RNA silencing was target-specific and is a new tool for gene regulation and metabolic engineering studies in Streptomyces.Peer reviewe
Revealing Correlation of Valence State with Nanoporous Structure in Cobalt Catalyst Nanoparticles by in Situ Environmental TEM
Simultaneously probing the electronic structure and morphology of materials
at the nanometer or atomic scale while a chemical reaction proceeds is
significant for understanding the underlying reaction mechanisms and optimizing
a materials design. This is especially important in the study of nanoparticle
catalysts, yet such experiments have rarely been achieved. Utilizing an
environmental transmission electron microscope (ETEM) equipped with a
differentially pumped gas cell, we are able to conduct nanoscopic imaging and
electron energy loss spectroscopy (EELS) in situ for cobalt catalysts under
reaction conditions. Analysis revealed quantitative correlation of the cobalt
valence states to the particles' nanoporous structures. The in situ experiments
were performed on nanoporous cobalt particles coated with silica while a 15
mTorr hydrogen environment was maintained at various temperatures
(300-600\degreeC). When the nanoporous particles were reduced, the valence
state changed from cobalt oxide to metallic cobalt and concurrent structural
coarsening was observed. In situ mapping of the valence state and the
corresponding nanoporous structures allows quantitatively analysis necessary
for understanding and improving the mass activity and lifetime of cobalt-based
catalysts, i.e., for Fischer-Tropsch synthesis that converts carbon monoxide
and hydrogen into fuels, and uncovering the catalyst optimization mechanisms.Comment: ACS Nano, accepte
Control and Characterization of Individual Grains and Grain Boundaries in Graphene Grown by Chemical Vapor Deposition
The strong interest in graphene has motivated the scalable production of high
quality graphene and graphene devices. Since large-scale graphene films
synthesized to date are typically polycrystalline, it is important to
characterize and control grain boundaries, generally believed to degrade
graphene quality. Here we study single-crystal graphene grains synthesized by
ambient CVD on polycrystalline Cu, and show how individual boundaries between
coalescing grains affect graphene's electronic properties. The graphene grains
show no definite epitaxial relationship with the Cu substrate, and can cross Cu
grain boundaries. The edges of these grains are found to be predominantly
parallel to zigzag directions. We show that grain boundaries give a significant
Raman "D" peak, impede electrical transport, and induce prominent weak
localization indicative of intervalley scattering in graphene. Finally, we
demonstrate an approach using pre-patterned growth seeds to control graphene
nucleation, opening a route towards scalable fabrication of single-crystal
graphene devices without grain boundaries.Comment: New version with additional data. Accepted by Nature Material
Ancestral Vascular Lumen Formation via Basal Cell Surfaces
The cardiovascular system of bilaterians developed from a common ancestor. However, no endothelial cells exist in invertebrates demonstrating that primitive cardiovascular tubes do not require this vertebrate-specific cell type in order to form. This raises the question of how cardiovascular tubes form in invertebrates? Here we discovered that in the invertebrate cephalochordate amphioxus, the basement membranes of endoderm and mesoderm line the lumen of the major vessels, namely aorta and heart. During amphioxus development a laminin-containing extracellular matrix (ECM) was found to fill the space between the basal cell surfaces of endoderm and mesoderm along their anterior-posterior (A-P) axes. Blood cells appear in this ECM-filled tubular space, coincident with the development of a vascular lumen. To get insight into the underlying cellular mechanism, we induced vessels in vitro with a cell polarity similar to the vessels of amphioxus. We show that basal cell surfaces can form a vascular lumen filled with ECM, and that phagocytotic blood cells can clear this luminal ECM to generate a patent vascular lumen. Therefore, our experiments suggest a mechanism of blood vessel formation via basal cell surfaces in amphioxus and possibly in other invertebrates that do not have any endothelial cells. In addition, a comparison between amphioxus and mouse shows that endothelial cells physically separate the basement membranes from the vascular lumen, suggesting that endothelial cells create cardiovascular tubes with a cell polarity of epithelial tubes in vertebrates and mammals
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