Histone Methylation Marks on Circulating Nucleosomes as Novel Blood-Based Biomarker in Colorectal Cancer

Circulating nucleic acids (CNAs) are under investigation as a liquid biopsy in cancer as potential non-invasive biomarkers, as stable structure in circulation nucleosomes could be valuable sources for detection of cancer-specific alterations in histone modifications. Our interest is in histone methylation marks with a focus on colorectal cancer, one of the leading cancers respective the incidence and mortality. Our previous work included the analysis of trimethylations of lysine 9 on histone 3 (H3K9me3) and of lysine 20 on histone 4 (H4K20me3) by chromatin immuno- precipitation-related PCR in circulating nucleosomes. Here we asked whether global immunologic measurement of histone marks in circulation could be a suitable approach to show their potential as biomarkers. In addition to H3K9me3 and H4K20me3 we also measured H3K27me3 in plasma samples from CRC patients (n = 63) and cancer free individuals (n = 40) by ELISA-based methylation assays. Our results show that of three marks, the amounts of H3K27me3 (p = 0.04) and H4K20me3 (p < 0.001) were significantly lower in CRC patients than in healthy controls. For H3K9me3 similar amounts were measured in both groups. Areas under the curve (AUC) in receiver operating characteristic (ROC) curves indicating the power of CRC detection were 0.620 for H3K27me3, 0.715 for H4K20me3 and 0.769 for the combination of both markers. In conclusion, findings of this preliminary study reveal the potential of blood-based detection of CRC by quantification of histone methylation marks and the additive effect of the marker combination.     

Microarchitectures for Managing Chip Revenues under Process Variations

As transistor feature sizes continue to shrink intothe sub-90nm range and beyond, the effects of process variationson critical path delay and chip yields have amplified. A commonconcept to remedy the effects of variation is speed-binning, bywhich chips from a single batch are rated by a discrete range offrequencies and sold at different prices. In this paper, we discussstrategies to modify the number of chips in different bins andhence enhance the profits obtained from them. Particularly, wepropose a scheme that introduces a small Substitute Cacheassociated with each cache way to replicate the data elementsthat will be stored in the high latency lines. Assuming a fixedpricing model, this method increases the revenue by as much as13.8% without any impact on the performance of the chips.     

A hyperheuristic approach to examination timetabling problems: benchmarks and a new problem from practice

Many researchers studying examination timetabling problems focus on either benchmark problems or problems from practice encountered in their institutions. Hyperheuristics are proposed as generic optimisation methods which explore the search space of heuristics rather than direct solutions. In the present study, the performance of tournament-based hyperheuristics for the exam timetabling problem are investigated. The target instances include both the Toronto and ITC 2007 benchmarks and the examination timetabling problem at KAHO Sint-Lieven (Ghent, Belgium). The Toronto and ITC 2007 benchmarks are post-enrolment-based examination timetabling problems, whereas the KAHO Sint-Lieven case is a curriculum-based examination timetabling problem. We drastically improve the previous (manually created) solution for the KAHO Sint-Lieven problem by generating a timetable that satisfies all the hard and soft constraints. We also make improvements on the best known results in the examination timetabling literature for seven out of thirteen instances for the To ronto benchmarks. The results are competitive with those of the finalists of the examination timetabling track of the International Timetabling Competition.     

Using a conductive sphere as a probe to characterize the sensitivity of soft piezoresistive films

Flexible piezoresistive films, such as, carbon black/polydimethylsiloxane (C-PDMS) composites, are often used as skin analogs and integrated into complex array sensors for tactile sensing. The uniformity of the sensor characteristics heavily depends on the homogeneity of the composite. Therefore, the ability to locally characterize a film that will be integrated into a complex force sensor could be critical. Here, a method to characterize the local sensitivity of flexible piezoresistive films is presented. Using a conductive sphere, which was chosen over a flat probe to eliminate misalignment issues, the surface of a thin film composite is indented to characterize the change in resistivity in terms of average strain. Experiments were performed with 15 and 18 wt% carbon black C-PDMS films of varying thickness. The contact radius of the probe with the piezoresistive film was estimated using the Johnson-Roberts-Kendall contact theory. Theoretical contact area estimates were found to agree with contact radius measurements carried out using optically transparent PDMS films observed through an optical microscope. Results show that C-PDMS with 15 wt% carbon black exhibit a higher rate if change of resistivity and gauge factor than films of same thickness with 18 wt% carbon black. On the other hand, thicker films exhibit higher gauge factors for the two tested carbon black contents. Tests carried out at multiple locations yielded consistent sensitivity values, making these types of composites suitable for array type force sensors.     

Generic visual analysis for multi- and hyperspectral image data

Multi- and hyperspectral imaging and data analysis has been investigated in the last decades in the context of various fields of application like remote sensing or microscopic spectroscopy. However, recent developments in sensor technology and a growing number of application areas require a more generic view on data analysis, that clearly expands the current, domain-specific approaches. In this context, we address the problem of interactive exploration of multi- and hyperspectral data, consisting of (semi-)automatic data analysis and scientific visualization in a comprehensive fashion. In this paper, we propose an approach that enables a generic interactive exploration and easy segmentation of multi- and hyperspectral data, based on characterizing spectra of an individual dataset, the so-called endmembers. Using the concepts of existing endmember extraction algorithms, we derive a visual analysis system, where the characteristic spectra initially identified serve as input to interactively tailor a problem-specific visual analysis by means of visual exploration. An optional outlier detection improves the robustness of the endmember detection and analysis. An adequate system feedback of the costly unmixing procedure for the spectral data with respect to the current set of endmembers is ensured by a novel technique for progressive unmixing and view update which is applied at user modification. The progressive unmixing is based on an efficient prediction scheme applied to previous unmixing results. We present a detailed evaluation of our system in terms of confocal Raman microscopy, common multispectral imaging and remote sensing.     

Krylov projection framework for Fourier model reduction

This paper analyzes the Fourier model reduction (FMR) method from a rational Krylov projection framework and shows how the FMR reduced model, which has guaranteed stability and a global error bound, can be computed in a numerically efficient and robust manner. By monitoring the rank of the Krylov subspace that underlies the FMR model, the projection framework also provides an improved criterion for determining the number of Fourier coefficients that are needed, and hence the size of the resulting reduced-order model. The advantages of applying FMR in the rational Krylov projection framework are demonstrated on a simple example.     

Free convective flow on a vertical plate with a constant heat flux in the presence of one or more steps

We carried out an experimental investigation of free convective heat transfer on a vertical plate subjected to a constant heat flux in the presence of one or several rectangular steps. Temperature fields were investigated with the help of a Mach-Zehnder interferometer. During the experiment the Rayleigh number changed from zero to Ra=2.8·10³. The flow was observed by the method of track visualization by means of a laser knife. Durectly behind a step we observed a circulating free convective flow having the shape of two oppositely rotating vortices.Academic Scientific Complex A. V. Luikov Heat and Mass Transfer Institute of the Academy of Sciences of Belarus, Minsk, Belarus. Translated from Inzhenerno-Fizicheskii Zhurnal, Vol. 67, Nos. 3–4, pp. 190–196, September–October, 1994.     

A Model for Cross-Domain Opinion Target Extraction in Sentiment Analysis

Opinion target extraction is one of the core tasks in sentiment analysis on text data. In recent years, dependency parser–based approaches have been commonly studied for opinion target extraction. However, dependency parsers are limited by language and grammatical constraints. Therefore, in this work, a sequential pattern-based rule mining model, which does not have such constraints, is proposed for cross-domain opinion target extraction from product reviews in unknown domains. Thus, knowing the domain of reviews while extracting opinion targets becomes no longer a requirement. The proposed model also reveals the difference between the concepts of opinion target and aspect, which are commonly confused in the literature. The model consists of two stages. In the first stage, the aspects of reviews are extracted from the target domain using the rules automatically generated from source domains. The aspects are also transferred from the source domains to a target domain. Moreover, aspect pruning is applied to further improve the performance of aspect extraction. In the second stage, the opinion target is extracted among the aspects extracted at the former stage using the rules automatically generated for opinion target extraction. The proposed model was evaluated on several benchmark datasets in different domains and compared against the literature. The experimental results revealed that the opinion targets of the reviews in unknown domains can be extracted with higher accuracy than those of the previous works.     

Biodegradable Microparticles for Simultaneous Detection of Counterfeit and Deteriorated Edible Products

In an era of globalized trade relations where food and pharmaceutical products cross borders effortlessly, consumers face counterfeit and deteriorated products at elevated rates. This paper presents multifunctional, biodegradable hydrogel microparticles that can provide information on the authenticity and the potential deterioration of the tagged food or pharmaceutical formulations. These microparticles integrate spatially patterned authenticity code with two sensors—the first one detects possible presence of pathogenic microbes through monitoring pH while the second one identifies products stored above optimal temperatures via optical monitoring of the microparticle degradation. Particles are synthesized from a biocompatible polymer and a photoinitiator, dextran modified with 2‐hydroxyethylmethacrylate and riboflavin, respectively, using a continuous, high throughput method stop‐flow lithography. The proposed synthesis approach also enables crosslinking with visible light bringing about additional flexibility to flow lithography. Model liquid and solid food and pharmaceutical products are successfully labeled with microparticles and the functionality of the sensors in aqueous solutions is demonstrated.