title: PromoSer: improvements to the algorithm, visualization and accessibility.
abstract: PromoSer is a web service that provides an easy and efficient approach to the batch retrieval of a large number of proximal promoters. Since its introduction last year, it has undergone continued development and expansion. At the core, there have been improvements in the filtering of the raw mRNA/EST sequences upon which all predictions are built, improvements in the alignments clustering and transcription start site prediction algorithms, and improvements in the backing database for increased performance. At the user interface level, improvements include enhanced functionality and user options, better integration with other resources on the web and a new visualization tool. PromoSer now also supports queries using a SOAP-based interface and XML-based responses. The service is publicly available at http://biowulf.bu.edu/zlab/PromoSer.
authors.affiliation: Bioinformatics Program, Boston University, 44 Cummington Street, Boston, MA 02215, USA.
authors.forename: Anason S
authors.initials: AS
authors.lastname: Halees
authors.forename: Zhiping
authors.initials: Z
authors.lastname: Weng
mesh_terms: D000465:Algorithms; D000818:Animals; D003196:Computer Graphics; D020224:Expressed Sequence Tags / Q000737:chemistry; D006801:Humans; D020407:Internet; D051379:Mice; D011401:Promoter Regions, Genetic; D012333:RNA, Messenger / Q000737:chemistry; D051381:Rats; D016415:Sequence Alignment; D017421:Sequence Analysis; D012984:Software; D024363:Transcription Initiation Site; D014584:User-Computer Interface
chemical_list: D012333:RNA, Messenger