Bioinformatics is the application of computer technology to the management and analysis of biological data. The result is that computers are being used to gather, store, analyze and merge biological data. The goal of bio-informatics is to uncover the wealth of biological information hidden in the mass of data and obtains a clearer insight into the fundamental biology of organisms. The most well...

In this issue, we are happy to present a collection of four articles that discuss the key factors in building a successful biological database. The bioinformatics community does many things, but we can roughly summarise most activities as either building algorithms or building databases. Successful algorithms are measured in terms of their time and space complexity, and there are well-known sta...

Aligning specific sequences against other known sequences in a database is a central aspect of bioinformatics. New experimental data being added continuously to these databases necessitates the use of efficient computational resources. Although processor clock frequencies speeds have been increasing steadily, it does not necessarily translate into better performance. In this paper, we analyze t...

The database, CryptoDB (http://CryptoDB.org), is a community bioinformatics resource for the AIDS-related apicomplexan-parasite, Cryptosporidium. CryptoDB integrates whole genome sequence and annotation with expressed sequence tag and genome survey sequence data and provides supplemental bioinformatics analyses and data-mining tools. A simple, yet comprehensive web interface is available for mi...

UNLABELLED Our current biological knowledge is spread over many independent bioinformatics databases where many different types of gene and protein identifiers are used. The heterogeneous and redundant nature of these identifiers limits data analysis across different bioinformatics resources. It is an even more serious bottleneck of data analysis for larger datasets, such as gene lists derived ...

Venomous animals produce a myriad of important pharmacological components. The individual components, or venoms (toxins), are used in ion channel and receptor studies, drug discovery, and formulation of insecticides. The toxin data are scattered across public databases which provide sequence and structural descriptions, but very limited functional annotation. The exponential growth of newly ide...

Recent accumulation of the bacterial 16S and 23S rRNA gene sequences in public GenBank databases obtained from wide use Polymerase Chain Reaction (PCR) Next Generation Sequencing (NGS) applications has led specialists fields microbiology bioinformatics to provide specific reliable for storing, retrieving aligning ribosomal sequences. In our review, we have provided a comprehensive description w...

One of the main challenges for knowledge discovery and data mining systems is to scale up their data interpretation abilities to discover interesting patterns in large datasets. This research addresses the scalability of graph-based discovery to monolithic datasets, which are prevalent in many real-world domains like bioinformatics, where vast amounts of data must be examined to find meaningful...

The grid is a promising tool to resolve the crucial issue of software and data integration in biology. In this paper, we have reported on our experience in the deployment of bioinformatic grid applications within the framework of the DataGrid project. These applications inquired the potential impact of grids for CPU demanding algorithms and bioinformatics web portals and for the update and dist...

Most bioinformatics research projects have adopted database management systems. Each project builds its own database schema to store sequence (re) annotations. However, as the number of bioinformatics projects grows, new database management issues emerge, such as, project management, project collaboration, schema integration, data distribution, data provenance, etc. This work investigates some ...