SPACE an algorithm to predict and quantify alternatively spliced isoforms using microarrays 英文参考文献.docVIP

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SPACE an algorithm to predict and quantify alternatively spliced isoforms using microarrays 英文参考文献.doc

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Open Access M d 2008AntonetVoal.lumeetho9, Issue 2, Article R46 SPACE: an algorithm to predict and quantify alternatively spliced isoforms using microarrays Miguel A Anton*, Dorleta Gorostiaga*, Elizabeth Guruceaga*, Victor Segura*, Pedro Carmona-Saez?, Alberto Pascual-Montano?, Ruben Pio§?, Luis M Montuenga§￥ and Angel Rubio* Addresses: *CEIT and TECNUN, University of Navarra, San Sebastián, Spain. ?Integromics SL, Madrid, Spain. ?Computer Architecture Department, Facultad de Ciencias Físicas, Universidad Complutense de Madrid, Madrid 28040, Spain. §Center for Applied Medical Research, University of Navarra, Pamplona, Spain. ?Department of Biochemistry, University of Navarra, Pamplona, Spain. ￥Department of Histology and Pathology, University of Navarra, Pamplona, Spain. Correspondence: Angel Rubio. Email: arubio@ceit.es Published: 29 February 2008 Received: 9 May 2007 Revised: 19 September 2007 Accepted: 29 February 2008 Genome Biology 2008, 9:R46 (doi:10.1186/gb-2008-9-2-r46) The electronic version of this article is the complete one and can be found online at /2008/9/2/R46 ? 2008 Anton et al.; licensee BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License (/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. PredictingjupncStiPoAn’CmEandiicsroanquantifyingararlagyodriattham.alternatived/peveloped tspliceo predformsict and quantify the pre-mRNA splicing structure of transcripts using exon and ‘exon plus 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