Tag Archives: Antimicrobial peptides

StarPep software & database

Overview

StarPepDB is an integrated graph database holding bioactive peptides and metadata from a large variety of biological data sources. The collected data from such heterogeneous data sources are cleaned, standardized, and merged so that it can be released into the proposed organized collection. In addition to this outcome, this graph database is embedded in the software application named starPep toolbox, which allows querying, filtering, visualizing, and analyzing the integrated data taking advantage of network-based representations.
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Identification and design of novel antimicrobial peptides

Introduction

The Antimicrobial Peptides (AMPs) have emerged as an alternative solution to fight against multi-drug-resistance infections. However, they have not been translated successfully to the therapeutic application as one would expect since its discovery in the early 1980s. Its limitations are the main reasons why there are many researchers that continue isolating and studying the AMPs. There is the conviction that this type of compounds will enter the marketplace as a valuable antimicrobial weapon in the next years.

During the last decade, the number of AMPs databases has increased thanks to the significant efforts made by researchers in the field. These databases hold thousands of naturally occurring examples and synthetic ones, providing valuable information regarding the structure and functions of AMPs. Particularly, we believe that there is an implicit knowledge that must be discovered and applied in the identification and design of novel antimicrobial agents that mimic the biological activity of AMPs.
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Dover Analyzer

Overview

Dover Analyzer is a wizard like application that takes collections of databases annotated in FASTA format and guides the user through a few steps to compute the overlap, diversity and redundant or non-redundant sets of peptide sequences. It is implemented in Java to achieve platform independence and has been designed initially to analyze the publicly available antimicrobial peptide databases. However, additional analysis can be done by simply adding new databases or replacing the existing ones.
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