Many AI tasks, such as product configuration, decision support, and the construction of autonomous agents, involve a process of con-

The move to relational probabilistic models from propositional models stemmed from the realization that the type of knowledge we have and need in many domains is at a level more generic than that of concrete objects. In reasoning about preference, too, often we have knowledge about the desirable behavior or state of a system of agents/objects, that applies to different instantiations of this sy...

In order to customize the display of meteorological data for different users, we use clustering to group similar users. We compute a rate of similarity between the current user and all others in the same cluster. We use this rate for weighting users’ preferences and then compute an average to be compared with a threshold to decide to display this parameter or not. The optimization of this thres...

In protein-coding genes, synonymous codon usage and amino acid composition correlate to expression in some eukaryotes, and may result from translational selection. Here, we studied large-scale RNA-seq data from three divergent arthropod models, including cricket (Gryllus bimaculatus), milkweed bug (Oncopeltus fasciatus), and the amphipod crustacean Parhyale hawaiensis, and tested for optimizati...

There are two main forces that affect usage of synonymous codons: directional mutational pressure and selection. The effectiveness of protein translation is usually considered as the main selectional factor. However, biased codon usage can also be a byproduct of a general selection at the amino acid level interacting with nucleotide replacements. To evaluate the validity and strength of such an...

We present a new efficient algorithm for obtaining utilitarian optimal solutions to Disjunctive Temporal Problems with Preferences (DTPPs). The previous state-of-the-art system achieves temporal preference optimization using a SAT formulation, with its creators attributing its performance to advances in SAT solving techniques. We depart from the SAT encoding and instead introduce the Valued DTP...

Synonymous codon usage (SCU) varies widely among human genes. In particular, genes involved in different functional categories display a distinct codon usage, which was interpreted as evidence that SCU is adaptively constrained to optimize translation efficiency in distinct cellular states. We demonstrate here that SCU is not driven by constraints on tRNA abundance, but by large-scale variation...

Codon usage bias (CUB) is an important evolutionary feature in a genome which provides important information for studying organism evolution, gene function and exogenous gene expression. The CUB and its shaping factors in the nuclear genomes of four sequenced cotton species, G. arboreum (A2), G. raimondii (D5), G. hirsutum (AD1) and G. barbadense (AD2) were analyzed in the present study. The ef...

Codon usage is the selective and nonrandom use of synonymous codons by an organism to encode the amino acids in the genes for its proteins. During the last few years, a large number of plant genes have been cloned and sequenced, which now permits a meaningful comparison of codon usage in higher plants, algae, and cyanobacteria. For the nuclear and organellar genes of these organisms, a small se...