title: ACMES: fast multiple-genome searches for short repeat sequences with concurrent cross-species information retrieval.
abstract: We have developed a web server for the life sciences community to use to search for short repeats of DNA sequence of length between 3 and 10,000 bases within multiple species. This search employs a unique and fast hash function approach. Our system also applies information retrieval algorithms to discover knowledge of cross-species conservation of repeat sequences. Furthermore, we have incorporated a part of the Gene Ontology database into our information retrieval algorithms to broaden the coverage of the search. Our web server and tutorial can be found at http://acmes.rnet.missouri.edu.
authors.affiliation: Department of Computer Science, University of Missouri, Columbia, MO 65211, USA.
authors.forename: Jeff
authors.initials: J
authors.lastname: Reneker
authors.forename: Chi-Ren
authors.initials: CR
authors.lastname: Shyu
authors.forename: Peiyu
authors.initials: P
authors.lastname: Zeng
authors.forename: Joseph C
authors.initials: JC
authors.lastname: Polacco
authors.forename: Walter
authors.initials: W
authors.lastname: Gassmann
mesh_terms: D000465:Algorithms; D017124:Conserved Sequence; D016678:Genome; D016680:Genome, Bacterial; D016681:Genome, Fungal; D018745:Genome, Plant; D023281:Genomics; D020407:Internet; D012091:Repetitive Sequences, Nucleic Acid; D017422:Sequence Analysis, DNA; D012984:Software; D013997:Time Factors; D014584:User-Computer Interface