ACMES: fast multiple-genome searches for short repeat sequences with concurrent cross-species information retrieval | Zendy

Joseph Reneker | Zendy; ChiRen Shyu | Zendy; P.Y. Zeng | Zendy; Joe C. Polacco | Zendy; Walter Gassmann | Zendy

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ACMES: fast multiple-genome searches for short repeat sequences with concurrent cross-species information retrieval

Author(s) -

Joseph Reneker,

ChiRen Shyu,

P.Y. Zeng,

Joe C. Polacco,

Walter Gassmann

Publication year - 2004

Publication title -

nucleic acids research

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 9.008

H-Index - 537

eISSN - 1362-4954

pISSN - 0305-1048

DOI - 10.1093/nar/gkh455

Subject(s) - biology , hash function , genome , gene ontology , information retrieval , web server , computational biology , function (biology) , gene , genetics , computer science , the internet , world wide web , gene expression , computer security

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.

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