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The MEME Suite web server provides a unified portal for online discovery and analysis of sequence motifs representing features such as DNA binding sites and protein interaction domains. The popular MEME motif discovery a...

Motivation: Recent advances in sequencing technologies promise ultra-long reads of ∼100 kb in average, full-length mRNA or cDNA reads in high throughput and genomic contigs over 100 Mb in length. Existing alignment pro...

We present Model-based Analysis of ChIP-Seq data, MACS, which analyzes data generated by short read sequencers such as Solexa's Genome Analyzer. MACS empirically models the shift size of ChIP-Seq tags, and uses it to imp...

SUMMARY: Limitations of genome sequencing techniques have led to dozens of assembly algorithms, none of which is perfect. A number of methods for comparing assemblers have been developed, but none is yet a recognized ben...

MOTIVATION: Biological sequence data is accumulating rapidly, motivating the development of improved high-throughput methods for sequence classification. RESULTS: UBLAST and USEARCH are new algorithms enabling sensitive ...

This paper is based in a simultaneous equations econometric model -estimated with the help of genetic algorithms- for the depiction of the Ecuadorian economy functioning. The structural model links the traditional macroe...

Genetic algorithms are playing an increasingly important role in studies of complex adaptive systems, ranging from adaptive agents in economic theory to the use of machine learning techniques in the design of complex dev...

A concept for the optimization of nonlinear functions using particle swarm methodology is introduced. The evolution of several paradigms is outlined, and an implementation of one of the paradigms is discussed. Benchmark ...

Mobile robot's navigation and obstacle avoidance in an unknown and static environment is analyzed in this paper. From the guidance of position sensors, artificial neural network (ANN) based controllers settle the desired...

Abstract In a 1935 paper and in his book Theory of Probability, Jeffreys developed a methodology for quantifying the evidence in favor of a scientific theory. The centerpiece was a number, now called the Bayes factor, wh...

Materias / palabras clave: molecular biology, biological structure analysis, genome analysis, sequence analysis, phylogeny, biological computation; Science: Biology (General): Genetics

Materias / palabras clave: artificial intelligence, machine learning, artificial neural networks, genetic algorithms, expert systems, fuzzy logic; Science: Mathematics: Instruments and machines: Electronic computers. Computer science