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There is a tendency among biologists studying social behavior to regard the adult sex ratio as an independent variable to which the species reacts with appropriate adaptations. D. Lack often interprets social behavior as...

The following paper presents current thinking and research on fit indices for structural equation modelling. The paper presents a selection of fit indices that are widely regarded as the most informative indices availabl...

Materias / palabras clave: Feature selection; Artificial intelligence; Selection (genetic algorithm); Computer science; Feature (linguistics); Pattern recognition (psychology); Machine learning; Linguistics; Philosophy

Reconstructing phylogenies from intraspecific data (such as human mitochondrial DNA variation) is often a challenging task because of large sample sizes and small genetic distances between individuals. The resulting mult...

We propose a novel image denoising strategy based on an enhanced sparse representation in transform domain. The enhancement of the sparsity is achieved by grouping similar 2-D image fragments (e.g., blocks) into 3-D data...

MOTIVATION: Accurate alignment of high-throughput RNA-seq data is a challenging and yet unsolved problem because of the non-contiguous transcript structure, relatively short read lengths and constantly increasing through...

Materias / palabras clave: Quantum computer; Computer science; Qubit; Human genome; DNA sequencing; Computational biology; Genome; Algorithm; Biology; Genetics; Theoretical computer science; Quantum

Clustering task aims at the unsupervised classification of patterns (e.g., observations, data, vec- tors, etc.) in different groups. Clustering problem has been approached from different disciplines during the last years...

In this paper we report exploratory analyses of high-density oligonucleotide array data from the Affymetrix GeneChip system with the objective of improving upon currently used measures of gene expression. Our analyses ma...

BACKGROUND: PLINK 1 is a widely used open-source C/C++ toolset for genome-wide association studies (GWAS) and research in population genetics. However, the steady accumulation of data from imputation and whole-genome seq...

Phylogenies are extremely useful tools, not only for establishing genealogical relationships among a group of organisms or their parts (e.g. genes), but also for a variety of research once the phylogenies are estimated. ...

Abstract Motivation: Many programs for aligning short sequencing reads to a reference genome have been developed in the last 2 years. Most of them are very efficient for short reads but inefficient or not applicable for ...

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...

BACKGROUND: In a previous paper, we introduced MUSCLE, a new program for creating multiple alignments of protein sequences, giving a brief summary of the algorithm and showing MUSCLE to achieve the highest scores reporte...

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...

A tandem repeat in DNA is two or more contiguous, approximate copies of a pattern of nucleotides. Tandem repeats have been shown to cause human disease, may play a variety of regulatory and evolutionary roles and are imp...

Bowtie is an ultrafast, memory-efficient alignment program for aligning short DNA sequence reads to large genomes. For the human genome, Burrows-Wheeler indexing allows Bowtie to align more than 25 million reads per CPU ...

BACKGROUND: VSEARCH is an open source and free of charge multithreaded 64-bit tool for processing and preparing metagenomics, genomics and population genomics nucleotide sequence data. It is designed as an alternative to...

This paper proposes a hybrid particle swarm approach called Simple Multi-Objective Particle Swarm Optimizer (SMOPSO) which incorporates Pareto dominance, an elitist policy, and two techniques to maintain diversity: a mut...

In this paper, we present a new model of an artificial immune system (AIS), based on the process that suffers the T-Cell, it is called T-Cell Model. It is used for solving constrained (numerical) optimization problems. T...

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...

BACKGROUND: The Avogadro project has developed an advanced molecule editor and visualizer designed for cross-platform use in computational chemistry, molecular modeling, bioinformatics, materials science, and related are...

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...

The identification of genetically homogeneous groups of individuals is a long standing issue in population genetics. A recent Bayesian algorithm implemented in the software STRUCTURE allows the identification of such gro...