Early biochemical experiments measuring nearest neighbor frequencies established that the set of dinucleotide relative abundance values (dinucleotide biases) is a remarkably stable property of the DNA of an organism. Analyses of currently available genomic sequence data have extended these earlier results, showing that the dinucleotide biases evaluated for successive 50 kb segments of a genome ...

With the knowledge of the amino acid sequences of two maize zein proteins (apparent molecular weights of 19,000 and 22,000), a structural model is proposed for their molecular conformation. The circular dichroic spectrum taken in the 190-240 nm range for a zein protein mixture in methanol solution showed the zein secondary structure to be largely helical. The polar, hydrophobic, and turn charac...

The DNA-binding properties of many ligands can be rationalized on the basis of their structural and electronic complementarity with the functional groups present in the minor and major grooves of particular DNA sequences. Specific hydrogen bonding patterns are particularly useful for the purpose of sequence recognition. Less obvious, however, is the influence of base composition on the conforma...

We present an automated methodology to optimize laminated composite structures. Our approach, inspired by bi-level optimization scheme, avoids its prime deficiencies and is based on developed computationally inexpensive stacking sequences reconstruction algorithm, which identically satisfies conventional set of blending rules. We combine it with proposed tight approximation to feasible domain o...

We propose layer-by-layer growth mechanisms to account for planar defect generation leading to kinked polytype nanowires. Cs-corrected scanning transmission electron microscopy enabled identification of stacking sequences of distinct polytype bands found in kinked nanowires, and Raman spectroscopy was used to distinguish polytype nanowires from twinned nanowires containing only the 3C diamond c...

This paper presents a method that allows to create programs by following the Programming by Demonstration paradigm. Plans for the execution of production processes such as assembly or stacking operation sequences are constructed not only from examples provided by the user through demonstrations. Additionally, the intention the user had in mind when demonstrating a speciic example is acquired th...

In this paper we interpret the semantic role labeling problem as a classification task, and apply memory-based learning to it in an approach similar to Buchholz et al. (1999) and Buchholz (2002) for grammatical relation labeling. We apply feature selection and algorithm parameter optimization strategies to our learner. In addition, we investigate the effect of two innovations: (i) the use of se...

This paper considers a demand response agent that must find a near-optimal sequence of decisions based on sparse observations of its environment. Extracting a relevant set of features from these observations is a challenging task and may require substantial domain knowledge. One way to tackle this problem is to store sequences of past observations and actions in the state vector, making it high...

We demonstrate that the gel electrophoretic mobility-shift assay (EMSA) can be used for site-selective and quantitative monitoring of nicks in linear double-stranded DNA (dsDNA) thus allowing to expediently follow the nicking activity of enzymes or other agents targeted to a designated dsDNA site. At elevated temperature and/or in the presence of urea, DNA fragments carrying a single nick produ...