In this paper, we describe techniques that can be used to predict the effects of gene deletion. We will focus mainly on the creation of predictive variables, and then briefly disc...
Background: With the expansion of public repositories such as the Gene Expression Omnibus (GEO), we are rapidly cataloging cellular transcriptional responses to diverse experiment...
Jesse M. Engreitz, Alexander A. Morgan, Joel Dudle...
Phylogenetic hidden Markov models (phylo-HMMs) have recently been proposed as a means for addressing a multispecies version of the ab initio gene prediction problem. These models ...
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...
There is a diversity of functional genomics data, such as gene expression data from microarray experiments, phenotypic data from gene deletion experiments, protein-protein interac...