Search results for "RICH"
showing 10 items of 3360 documents
Fluorescence Properties of the Chromophore-Binding Domain of Bacteriophytochrome from Deinococcus radiodurans
2013
Fluorescent proteins are versatile tools for molecular imaging. In this study, we report a detailed analysis of the absorption and fluorescence properties of the chromophore-binding domain from Deinococcus radiodurans and its D207H mutant. Using single photon counting and transient absorption techniques, the average excited state lifetime of both studied systems was about 370 ps. The D207H mutation slightly changed the excited state decay profile but did not have a considerable effect on the average decay time of the system or the shape of the absorption and emission spectra of the biliverdin chromophore. We confirmed that the fluorescence properties of both samples are very similar in vivo…
Follow-up trends of parasite community alteration in a marine fish after the Prestige oil-spill: shifting baselines?
2008
This study evaluates the follow-up trends in the composition and structure of the parasite communities in the marine sparid Boops boops after the Prestige oil-spill. A total of 400 fish comprising 11 seasonal samples was analyzed from three impacted localities on the Atlantic coast of Spain. A large number of parasite species was recovered only after the spill thus suggesting a substantial alteration of the marine food webs. Post-spill communities exhibited higher richness and abundance due to the significant changes in the abundance of the common species, the latter indicating accelerated parasite transmission rates. Multivariate analyses at two nested scales detected a directional trend i…
Function of DcuS from Escherichia coli as a Fumarate-stimulated Histidine Protein Kinase in Vitro
2002
The two-component regulatory system DcuSR of Escherichia coli controls the expression of genes of C(4)-dicarboxylate metabolism in response to extracellular C(4)- dicarboxylates such as fumarate or succinate. DcuS is a membrane-integral sensor kinase, and the sensory and kinase domains are located on opposite sides of the cytoplasmic membrane. The intact DcuS protein (His(6)-DcuS) was overproduced and isolated in detergent containing buffer. His(6)-DcuS was reconstituted into liposomes made from E. coli phospholipids. Reconstituted His(6)-DcuS catalyzed, in contrast to the detergent-solubilized sensor, autophosphorylation by [gamma-(33)P]ATP with an approximate K(D) of 0.16 mm for ATP. Up t…
Robust dynamical pattern formation from a multifunctional minimal genetic circuit.
2010
Abstract Background A practical problem during the analysis of natural networks is their complexity, thus the use of synthetic circuits would allow to unveil the natural mechanisms of operation. Autocatalytic gene regulatory networks play an important role in shaping the development of multicellular organisms, whereas oscillatory circuits are used to control gene expression under variable environments such as the light-dark cycle. Results We propose a new mechanism to generate developmental patterns and oscillations using a minimal number of genes. For this, we design a synthetic gene circuit with an antagonistic self-regulation to study the spatio-temporal control of protein expression. He…
Role of tir and intimin in the virulence of rabbit enteropathogenic Escherichia coli serotype O103:H2.
2000
ABSTRACT Attaching and effacing (A/E) rabbit enteropathogenic Escherichia coli (REPEC) strains belonging to serogroup O103 are an important cause of diarrhea in weaned rabbits. Like human EPEC strains, they possess the locus of enterocyte effacement clustering the genes involved in the formation of the A/E lesions. In addition, pathogenic REPEC O103 strains produce an Esp-dependent but Eae (intimin)-independent alteration of the host cell cytoskeleton characterized by the formation of focal adhesion complexes and the reorganization of the actin cytoskeleton into bundles of stress fibers. To investigate the role of intimin and its translocated coreceptor (Tir) in the pathogenicity of REPEC, …
Color memory in protanomals and deuteranomals: Matching time effect
2003
In a companion paper Perez-Carpinell et al., Color Res Appl 2001;26:158–170, for a set of seven color references, we compared the methods of simultaneous and memory color matching by 15 protanomals and 21 deuteranomals, looking for differences between them and a group of 25 normal trichromat observers investigated previously Perez-Carpinell et al., Color Res Appl 1998;23:234–247. In our current article, matching times of the same anomalous trichromat groups, and with the same reference tests, to select from among the comparison chips the one that most resembled one of the seven reference tests, have been measured under simultaneous and successive color matching procedures. From comparison b…
Preliminary Estimation of Deoxynivalenol Excretion through a 24 h Pilot Study
2015
A duplicate diet study was designed to explore the occurrence of 15 Fusarium mycotoxins in the 24 h-diet consumed by one volunteer as well as the levels of mycotoxins in his 24 h-collected urine. The employed methodology involved solvent extraction at high ionic strength followed by dispersive solid phase extraction and gas chromatography determination coupled to mass spectrometry in tandem. Satisfactory results in method performance were achieved. The method"s accuracy was in a range of 68%108%, with intra-day relative standard deviation and inter-day relative standard deviation lower than 12% and 15%, respectively. The limits of quantitation ranged from 0.1 to 8 μg/Kg. The matrix effect w…
Multi-label Classification Using Stacked Hierarchical Dirichlet Processes with Reduced Sampling Complexity
2018
Nonparametric topic models based on hierarchical Dirichlet processes (HDPs) allow for the number of topics to be automatically discovered from the data. The computational complexity of standard Gibbs sampling techniques for model training is linear in the number of topics. Recently, it was reduced to be linear in the number of topics per word using a technique called alias sampling combined with Metropolis Hastings (MH) sampling. We propose a different proposal distribution for the MH step based on the observation that distributions on the upper hierarchy level change slower than the document-specific distributions at the lower level. This reduces the sampling complexity, making it linear i…
Online Sparse Collapsed Hybrid Variational-Gibbs Algorithm for Hierarchical Dirichlet Process Topic Models
2017
Topic models for text analysis are most commonly trained using either Gibbs sampling or variational Bayes. Recently, hybrid variational-Gibbs algorithms have been found to combine the best of both worlds. Variational algorithms are fast to converge and more efficient for inference on new documents. Gibbs sampling enables sparse updates since each token is only associated with one topic instead of a distribution over all topics. Additionally, Gibbs sampling is unbiased. Although Gibbs sampling takes longer to converge, it is guaranteed to arrive at the true posterior after infinitely many iterations. By combining the two methods it is possible to reduce the bias of variational methods while …
Using Topic Modeling Methods for Short-Text Data: A Comparative Analysis
2020
With the growth of online social network platforms and applications, large amounts of textual user-generated content are created daily in the form of comments, reviews, and short-text messages. As a result, users often find it challenging to discover useful information or more on the topic being discussed from such content. Machine learning and natural language processing algorithms are used to analyze the massive amount of textual social media data available online, including topic modeling techniques that have gained popularity in recent years. This paper investigates the topic modeling subject and its common application areas, methods, and tools. Also, we examine and compare five frequen…