SpliceCenter: a suite of web-based bioinformatic applications for evaluating the impact of alternative splicing on RT-PCR, RNAi, microarray, and peptide-based studies.

Ryan MC, Zeeberg BR, Caplen NJ, Cleland JA, Kahn AB, Liu H, Weinstein JN.

BMC Bioinformatics. 2008 Jul 18;9:313.

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SpliceMiner: a high-throughput database implementation of the NCBI Evidence Viewer for microarray splice variant analysis.

Kahn AB, Ryan MC, Liu H, Zeeberg BR, Jamison DC, Weinstein JN.

BMC Bioinformatics. 2007 Mar 5;8:75.

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A new advance in alternative splicing databases: from catalogue to detailed analysis of regulation of expression and function of human alternative splicing variants.

de la Grange P, Dutertre M, Correa M, Auboeuf D.

BMC Bioinformatics. 2007 Jun 4;8:180.

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AffyProbeMiner: a web resource for computing or retrieving accurately redefined Affymetrix probe sets.

Liu H, Zeeberg BR, Qu G, Koru AG, Ferrucci A, Kahn A, Ryan MC, Nuhanovic A, Munson PJ, Reinhold WC, Kane DW, Weinstein JN.

Bioinformatics. 2007 Sep 15;23(18):2385-90. Epub 2007 Jul 27.

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Splicy: a web-based tool for the prediction of possible alternative splicing events from Affymetrix probeset data.

Rambaldi D, Felice B, Praz V, Bucher P, Cittaro D, Guffanti A.

BMC Bioinformatics. 2007 Mar 8;8 Suppl 1:S17.

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Alternative splicing and differential gene expression in colon cancer detected by a whole genome exon array.

Gardina PJ, Clark TA, Shimada B, Staples MK, Yang Q, Veitch J, Schweitzer A, Awad T, Sugnet C, Dee S, Davies C, Williams A, Turpaz Y.

BMC Genomics. 2006 Dec 27;7:325.

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MAASE: an alternative splicing database designed for supporting splicing microarray applications.

Zheng CL, Kwon YS, Li HR, Zhang K, Coutinho-Mansfield G, Yang C, Nair TM, Gribskov M, Fu XD.

RNA. 2005 Dec;11(12):1767-76. Epub 2005 Oct 26.

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Predicting splice variant from DNA chip expression data.

Hu GK, Madore SJ, Moldover B, Jatkoe T, Balaban D, Thomas J, Wang Y.

Genome Res. 2001 Jul;11(7):1237-45.

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Bioinformatics detection of alternative splicing.

Kim N, Lee C.

Methods Mol Biol. 2008;452:179-97. Review.

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Large scale real-time PCR validation on gene expression measurements from two commercial long-oligonucleotide microarrays.

Wang Y, Barbacioru C, Hyland F, Xiao W, Hunkapiller KL, Blake J, Chan F, Gonzalez C, Zhang L, Samaha RR.

BMC Genomics. 2006 Mar 21;7:59.

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PageMan: an interactive ontology tool to generate, display, and annotate overview graphs for profiling experiments.

Usadel B, Nagel A, Steinhauser D, Gibon Y, Bläsing OE, Redestig H, Sreenivasulu N, Krall L, Hannah MA, Poree F, Fernie AR, Stitt M.

BMC Bioinformatics. 2006 Dec 18;7:535.

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Djinn Lite: a tool for customised gene transcript modelling, annotation-data enrichment and exploration.

Teber ET, Crawford E, Bolton KB, Van Dyk D, Schofield PR, Kapoor V, Church WB.

BMC Bioinformatics. 2006 Jan 23;7:33.

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A microarray configuration to quantify expression levels and relative abundance of splice variants.

Fehlbaum P, Guihal C, Bracco L, Cochet O.

Nucleic Acids Res. 2005 Mar 10;33(5):e47.

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An alternative method to amplify RNA without loss of signal conservation for expression analysis with a proteinase DNA microarray in the ArrayTube format.

Schüler S, Wenz I, Wiederanders B, Slickers P, Ehricht R.

BMC Genomics. 2006 Jun 12;7:144.

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AbMiner: a bioinformatic resource on available monoclonal antibodies and corresponding gene identifiers for genomic, proteomic, and immunologic studies.

Major SM, Nishizuka S, Morita D, Rowland R, Sunshine M, Shankavaram U, Washburn F, Asin D, Kouros-Mehr H, Kane D, Weinstein JN.

BMC Bioinformatics. 2006 Apr 6;7:192.

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HOLLYWOOD: a comparative relational database of alternative splicing.

Holste D, Huo G, Tung V, Burge CB.

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p53FamTaG: a database resource of human p53, p63 and p73 direct target genes combining in silico prediction and microarray data.

Sbisà E, Catalano D, Grillo G, Licciulli F, Turi A, Liuni S, Pesole G, De Grassi A, Caratozzolo MF, D'Erchia AM, Navarro B, Tullo A, Saccone C, Gisel A.

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Revised genomic structure of the human ghrelin gene and identification of novel exons, alternative splice variants and natural antisense transcripts.

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BMC Genomics. 2007 Aug 30;8:298.

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ASPicDB: a database resource for alternative splicing analysis.

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