Background: In recent times, there has been an exponential rise in the number of protein structures in databases e.g. PDB. So, design of fast algorithms capable of querying such d...
Identification of Transcription Factor Binding Site (TFBS) motifs in multiple DNA upstream sequences is important in understanding the mechanism of gene regulation. This identific...
Serial analysis of gene expression (SAGE) is one of the most powerful tools for global gene expression profiling. It has led to several biological discoveries and biomedical appli...
Background: Inference of evolutionary trees using the maximum likelihood principle is NP-hard. Therefore, all practical methods rely on heuristics. The topological transformations...
Background: Most gene finders score candidate gene models with state-based methods, typically HMMs, by combining local properties (coding potential, splice donor and acceptor patt...
Qian Liu, Koby Crammer, Fernando C. N. Pereira, Da...