title: SLAM web server for comparative gene finding and alignment.
abstract: SLAM is a program that simultaneously aligns and annotates pairs of homologous sequences. The SLAM web server integrates SLAM with repeat masking tools and the AVID alignment program to allow for rapid alignment and gene prediction in user submitted sequences. Along with annotations and alignments for the submitted sequences, users obtain a list of predicted conserved non-coding sequences (and their associated alignments). The web site also links to whole genome annotations of the human, mouse and rat genomes produced with the SLAM program. The server can be accessed at http://bio.math.berkeley.edu/slam.
authors.affiliation: Affymetrix Inc., 6550 Vallejo St, Suite 100, Emeryville, CA 94608, USA. simon_cawley@affymetrix.com
authors.forename: Simon
authors.initials: S
authors.lastname: Cawley
authors.forename: Lior
authors.initials: L
authors.lastname: Pachter
authors.forename: Marina
authors.initials: M
authors.lastname: Alexandersson
mesh_terms: D000465:Algorithms; D000595:Amino Acid Sequence; D000818:Animals; D001483:Base Sequence; D017124:Conserved Sequence; D040461:Gene Components; D023281:Genomics / Q000379:methods*; D006801:Humans; D020407:Internet; D008390:Markov Chains; D051379:Mice; D010455:Peptides / Q000737:chemistry; D012333:RNA, Messenger / Q000737:chemistry; D022661:RNA, Untranslated / Q000737:chemistry; D051381:Rats; D016415:Sequence Alignment / Q000379:methods*; D017422:Sequence Analysis, DNA / Q000379:methods*; D012984:Software
chemical_list: D010455:Peptides; D012333:RNA, Messenger; D022661:RNA, Untranslated