Combining classifiers under probabilistic models: experimental comparative analysis of methods

This work will present a review of the concept of classifier combination based on the combined discriminant function. We will present a Bayesian approach, in which the discriminant function assumes the role of the posterior probability. We will propose a probabilistic interpretation of expert rules and conditions of knowledge consistency for expert rules and learning sets. We will suggest how to measure the quality of learning materials and we will use the measure mentioned above for an algorithm that eliminates contradictions in the rule set. In this work several recognition algorithms will be described, based on either: (i) pure rules, or; (ii) rules together with learning sets. Furthermore, the original concept of information unification, which enables the formation of rules on the basis of learning set or learning set on the basis of rules will be proposed. The obtained conclusions will serve as a spring‐board for the formulation of new project guidelines for this type of decision‐making system. At the end, experimental results of the proposed algorithms will be presented, both from computer generated data and for a real problem from the medical diagnostics field.     

Image auto-annotation with automatic selection of the annotation length

Developing a satisfactory and effective method for auto-annotating images that works under general conditions is a challenging task. The advantages of such a system would be manifold: it can be used to annotate existing, large databases of images, rendering them accessible to text search engines; or it can be used as core for image retrieval based on a query image’s visual content. Manual annotation of images is a difficult, tedious and time consuming task. Furthermore, manual annotations tend to show great inter-person variance: considering an image, the opinions about what elements are significant and deserve an annotation vary strongly. The latter poses a problem for the evaluation of an automatic method, as an annotation’s correctness is greatly subjective. In this paper we present an automatic method for annotating images, which addresses one of the existing methods’ major limitation, namely a fixed annotation length. The proposed method, PATSI, automatically chooses the resulting annotation’s length for each query image. It is held as simple as possible and a build-in parameter optimization procedure renders PATSI de-facto parameter free. Finally, PATSI is evaluated on standard datasets, outperforming various state-of-the-art methods.     

Surface hardening of Ti alloys by gas-phase nitridation: Kinetic control of the nitrogen surface activity

A new concept for surface hardening of titanium alloys has been developed and successfully applied to Ti-6Al-4V alloys: gas-phase nitridation under kinetic control of the nitrogen activity. This method avoids the formation of detrimental second-phase nitrides by nitriding under a very low nitrogen activity, combined with rapid diffusion of nitrogen into the specimen. The surface hardness of the Ti-6Al-4V alloy was increased by a factor of 2 to ≈ 12 GPa, with only modest attenuation of ductility. We have realized conditions for generating case depths of ≈ 25 μm in reasonable nitridation times. The nitrogen activity in the gas phase is generated by heating a powder pack of Cr and Cr₂N. A closed two-zone system allows the powder pack and the specimen to be at different temperatures, optimizing both the nitrogen partial pressure and the nitrogen diffusion into the specimen. This low-cost, conformal nitridation process generates a smoothly graded nitrogen concentration profile and can be applied to finished Ti alloy components.     

Alzheimer paired helical filaments (PHFs) studied by high-resolution TEM: what can vertical Pt-C replication tell us about the organization of the pronase-digested PHF core?

Untreated paired helical filaments (PHFs) and pronase-digested PHF-core filaments were stereoscopically imaged with a freeze-drying vertical platinum-carbon replication preparation method for TEM. The untreated PHF have an average wide region (W) = 22.8 +/- 2.4 nm, a narrow region (T) = 10.6 +/- 1.7 nm, and a helical turn period (L) = 78.6 +/- 13.4. The surfaces of the untreated PHF's fuzzy coat appears disorganized. The widths of the pronase-treated PHF-core filaments were significantly reduced (W(d) = 14.8 +/- 1.2 nm, T(d) = 5.7 +/- 1.0 nm, and L(d) = 75.4 +/- 17 nm). The surfaces of the untreated PHF contained approximately 1.1 nm strands, the same size as tau monomer ( approximately 1.0 nm). The pronase-digested PHF cores mostly contained approximately 1.6 +/- 0.3 nm strands although strand diameters ranged from 0.6-2.5 nm. The strands sometimes appear to be wrapped around the filament axis; less often, they appear to be roughly parallel to the PHF axis, and otherwise appear to be randomly oriented. Images of pronase-digested PHF core images are discussed in relation to the core's biochemical composition, its proposed beta structure, and structural subunit models. Images of the untreated and the pronase-digested PHF support a helical ribbon morphology.     

Structural Abnormalities of the Optic Nerve and Retina in Huntington’s Disease Pre-Clinical and Clinical Settings

Huntington’s disease (HD) is a fatal neurodegenerative disorder caused by a polyglutamine expansion in the huntingtin protein. HD-related pathological remodelling has been reported in HD mouse models and HD carriers. In this study, we studied structural abnormalities in the optic nerve by employing Spectral Domain Optical Coherence Tomography (SD-OCT) in pre-symptomatic HD carriers of Caucasian origin. Transmission Electron Microscopy (TEM) was used to investigate ultrastructural changes in the optic nerve of the well-established R6/2 mouse model at the symptomatic stage of the disease. We found that pre-symptomatic HD carriers displayed a significant reduction in the retinal nerve fibre layer (RNFL) thickness, including specific quadrants: superior, inferior and temporal, but not nasal. There were no other significant irregularities in the GCC layer, at the macula level and in the optic disc morphology. The ultrastructural analysis of the optic nerve in R6/2 mice revealed a significant thinning of the myelin sheaths, with a lamellar separation of the myelin, and a presence of myelonoid bodies. We also found a significant reduction in the thickness of myelin sheaths in peripheral nerves within the choroids area. Those ultrastructural abnormalities were also observed in HD photoreceptor cells that contained severely damaged membrane disks, with evident vacuolisation and swelling. Moreover, the outer segment of retinal layers showed a progressive disintegration. Our study explored structural changes of the optic nerve in pre- and clinical settings and opens new avenues for the potential development of biomarkers that would be of great interest in HD gene therapies.     

Oxidative Damage in Sporadic Colorectal Cancer: Molecular Mapping of Base Excision Repair Glycosylases MUTYH and hOGG1 in Colorectal Cancer Patients

Oxidative stress, oxidative DNA damage and resulting mutations play a role in colorectal carcinogenesis. Impaired equilibrium between DNA damage formation, antioxidant status, and DNA repair capacity is responsible for the accumulation of genetic mutations and genomic instability. The lesion-specific DNA glycosylases, e.g., hOGG1 and MUTYH, initiate the repair of oxidative DNA damage. Hereditary syndromes (MUTYH-associated polyposis, NTHL1-associated tumor syndrome) with germline mutations causing a loss-of-function in base excision repair glycosylases, serve as straight forward evidence on the role of oxidative DNA damage and its repair. Altered or inhibited function of above glycosylases result in an accumulation of oxidative DNA damage and contribute to the adenoma-adenocarcinoma transition. Oxidative DNA damage, unless repaired, often gives rise G:C > T:A mutations in tumor suppressor genes and proto-oncogenes with subsequent occurrence of chromosomal copy-neutral loss of heterozygosity. For instance, G>T transversions in position c.34 of a KRAS gene serves as a pre-screening tool for MUTYH-associated polyposis diagnosis. Since sporadic colorectal cancer represents more complex and heterogenous disease, the situation is more complicated. In the present study we focused on the roles of base excision repair glycosylases (hOGG1, MUTYH) in colorectal cancer patients by investigating tumor and adjacent mucosa tissues. Although we found downregulation of both glycosylases and significantly lower expression of hOGG1 in tumor tissues, accompanied with G>T mutations in KRAS gene, oxidative DNA damage and its repair cannot solely explain the onset of sporadic colorectal cancer. In this respect, other factors (especially microenvironment) per se or in combination with oxidative DNA damage warrant further attention. Base excision repair characteristics determined in colorectal cancer tissues and their association with disease prognosis have been discussed as well.     

Incremental Branching Programs

We propose a new model of restricted branching programs specific to solving GEN problems, which we call incremental branching programs. We show that syntactic incremental branching programs capture previously studied models of computation for the problem GEN, namely marking machines (Cook, S.A. in J. Comput. Syst. Sci. 9(3):308–316, 1974) and Poon’s extension (Proc. of the 34th IEEE Symp. on the Foundations of Computer Science, pp. 218–227, 1993) of jumping automata on graphs (Cook, S.A., Rackoff, C.W. in SIAM J. Comput. 9:636–652, 1980). We then prove exponential size lower bounds for our syntactic incremental model, and for some other variants of branching program computation for GEN. We further show that nondeterministic syntactic incremental branching programs are provably stronger than their deterministic counterpart when solving a natural NL-complete GEN sub-problem. It remains open if syntactic incremental branching programs are as powerful as unrestricted branching programs for GEN problems. A preliminary version of this paper appears as (Gál, A., Koucky, M., McKenzie, P., Incremental branching programs, in Proc. of the 2006 Computer Science in Russia Conference CSR06. Lecture Notes in Computer Science, vol. 3967, pp. 178–190, 2006). A. Gal supported in part by NSF Grant CCF-0430695 and an Alfred P. Sloan Research Fellowship. M. Koucky did part of this work while being a postdoctoral fellow at McGill University, Canada and at CWI, Amsterdam, Netherlands. Supported in part by NWO vici project 2004–2009, project No. 1M0021620808 of MŠMT ČR, grants 201/07/P276, 201/05/0124 of GA ČR, and Institutional Research Plan No. AV0Z10190503. P. McKenzie supported by the NSERC of Canada and the (Québec) FQRNT.     

Hematites Precipitated in Alkaline Precursors: Comparison of Structural and Textural Properties for Methane Oxidation

Hematite (α-Fe₂O₃) catalysts prepared using the precipitation methods was found to be highly effective, and therefore, it was studied with methane (CH₄), showing an excellent stable performance below 500 °C. This study investigates hematite nanoparticles (NPs) obtained by precipitation in water from the precursor of ferric chloride hexahydrate using precipitating agents NaOH or NH₄OH at maintained pH 11 and calcined up to 500 °C for the catalytic oxidation of low concentrations of CH₄ (5% by volume in air) at 500 °C to compare their structural state in a CH₄ reducing environment. The conversion (%) of CH₄ values decreasing with time was discussed according to the course of different transformation of goethite and hydrohematites NPs precursors to magnetite and the structural state of the calcined hydrohematites. The phase composition, the size and morphology of nanocrystallites, thermal transformation of precipitates and the specific surface area of the NPs were characterized in detail by X-ray powder diffraction, transmission electron microscopy, infrared spectroscopy, thermal TG/DTA analysis and nitrogen physisorption measurements. The results support the finding that after goethite dehydration, transformation to hydrohematite due to structurally incorporated water and vacancies is different from hydrohematite α-Fe₂O₃. The surface area SBET of Fe₂O₃_NH-70 precipitate composed of protohematite was larger by about 53 m²/g in comparison with Fe₂O₃_Na-70 precipitate composed of goethite. The oxidation of methane was positively influenced by the hydrohematites of the smaller particle size and the largest lattice volume containing structurally incorporated water and vacancies.