The purpose of this article is to provide a brief history of the development and application of
computer algorithms for the analysis and prediction of DNA binding sites. This problem can …

Antibiotic resistance is increasing at a rate that far exceeds the pace of new development of
drugs. Antimicrobial peptides, both synthetic and from natural sources, have raised interest …

Decision trees have become one of the most powerful and popular approaches in
knowledge discovery and data mining; it is the science of exploring large and complex …

Constraint programming is a powerful paradigm for solving combinatorial search problems
that draws on a wide range of techniques from artificial intelligence, computer science …

We present rna22, a method for identifying microRNA binding sites and their corresponding
heteroduplexes. Rna22 does not rely upon cross-species conservation, is resilient to noise …

Motivation: A tool that simultaneously aligns multiple protein sequences, automatically
utilizes information about protein domains, and has a good compromise between speed and …

With the recent exponential increase in protein phosphorylation sites identified by mass
spectrometry, a unique opportunity has arisen to understand the motifs surrounding such …

We present a new algorithm for mining maximal frequent itemsets from a transactional
database. Our algorithm is especially efficient when the itemsets in the database are very …

Background We present an overview of bacterial non-classical secretion and a prediction
method for identification of proteins following signal peptide independent secretion …

Several important time series data mining problems reduce to the core task of finding
approximately repeated subsequences in a longer time series. In an earlier work, we …