ACMES: fast multiple-genome searches for short repeat sequences with concurrent cross-species information retrieval.
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.
Reneker
Jeff
J
Department of Computer Science, University of Missouri, Columbia, MO 65211, USA.
Shyu
Chi-Ren
CR
Zeng
Peiyu
P
Polacco
Joseph C
JC
Gassmann
Walter
W
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