title: SPACE: an algorithm to predict and quantify alternatively spliced isoforms using microarrays.
abstract: Exon and exon+junction microarrays are promising tools for studying alternative splicing. Current analytical tools applied to these arrays lack two relevant features: the ability to predict unknown spliced forms and the ability to quantify the concentration of known and unknown isoforms. SPACE is an algorithm that has been developed to (1) estimate the number of different transcripts expressed under several conditions, (2) predict the precursor mRNA splicing structure and (3) quantify the transcript concentrations including unknown forms. The results presented here show its robustness and accuracy for real and simulated data.
authors.affiliation: CEIT and TECNUN, University of Navarra, San Sebastián, Spain. maanton@ceit.es
authors.forename: Miguel A
authors.initials: MA
authors.lastname: Anton
authors.forename: Dorleta
authors.initials: D
authors.lastname: Gorostiaga
authors.forename: Elizabeth
authors.initials: E
authors.lastname: Guruceaga
authors.forename: Victor
authors.initials: V
authors.lastname: Segura
authors.forename: Pedro
authors.initials: P
authors.lastname: Carmona-Saez
authors.forename: Alberto
authors.initials: A
authors.lastname: Pascual-Montano
authors.forename: Ruben
authors.initials: R
authors.lastname: Pio
authors.forename: Luis M
authors.initials: LM
authors.lastname: Montuenga
authors.forename: Angel
authors.initials: A
authors.lastname: Rubio
mesh_terms: D000465:Algorithms; D017398:Alternative Splicing; D000818:Animals; D019295:Computational Biology / Q000379:methods*; D003198:Computer Simulation; D005091:Exons; D006801:Humans; D020411:Oligonucleotide Array Sequence Analysis; D020033:Protein Isoforms / Q000235:genetics*; D014158:Transcription, Genetic
chemical_list: D020033:Protein Isoforms