The aim of this chapter is to provide instruction for analyzing and mapping recent segmental and gene duplications in eukaryotic genomes. We describe a bioinformatics-based approach utilizing computational tools to manage eukaryotic genome sequences to characterize and understand the evolutionary fates and trajectories of duplicated genes. An introduction to bioinformatics tools and programs su...

Bioinformatics is central to biology education in the 21st century. With the generation of terabytes of data per day, the application of computer-based tools to stored and distributed data is fundamentally changing research and its application to problems in medicine, agriculture, conservation and forensics. In light of this 'information revolution,' undergraduate biology curricula must be rede...

To solve the real-world bioinformatics problems on grid, the integration of various analysis tools is necessary in addition to the implementation of basic tools. Workflow based problem solving environment on grid can be the efficient solution for this type of software development. Here we propose a model of simple problem solving environment that enables component based workflow design of integ...

The advanced bioinformatics technologies are accepted for usefulness in medicine and public health. It can be useful for diagnosis, treatment and prevention of disease. The neuroinformatics is a specific subject of bioinformatics dealing with omics technology for neurology. Several new software and computation tools are developed for serving as databases as well as simulation tools in neuroinfo...

Summary Counting all k -mers in a given dataset is a standard procedure in many bioinformatics applications. We introduce KMC3, a significant improvement of the former KMC2 algorithm together with KMC tools for manipulating k -mer databases. Usefulness of the tools is shown on a few real problems. Availability and implementation Program is freely available at http://sun.aei.polsl.pl/REFRESH/k...

The Links Directory at Bioinformatics.ca continues its collaboration with Nucleic Acids Research to jointly publish and compile a freely accessible, online collection of tools, databases and resource materials for bioinformatics and molecular biology research. The July 2010 Web Server issue of Nucleic Acids Research adds an additional 115 web server tools and 7 updates to the directory at http:...

Bioinformatics activities present new challenges, such as how to exchange and reuse successful experimental procedures, tools and data, and how to understand and provide interoperability among data and tools across different sites, for distinct user profiles. This thesis is an effort towards these directions. It is based on combining research on databases, AI and scientific workflows, on the Se...

This review provides an overview of bioinformatics from the user’s point of view. Bioinformatics, defined as the application of computers, databases, and computational methods to the management of biologic information, is essential for almost every aspect of data management in modern biology. The rapid accumulation of genomic sequence information together with the wide availability of new techn...

Multiple omics data are rapidly becoming available, necessitating the use of new methods to integrate different technologies and interpret the results arising from multimodal assaying. The MathIOmica package for Mathematica provides one of the first extensive introductions to the use of the Wolfram Language to tackle such problems in bioinformatics. The package particularly addresses the necess...