Abstract
Alternative splicing (AS) is a basic molecular phenomenon that increases the functional complexity of higher eukaryotic transcriptomes. Indeed, through AS individual gene loci can generate multiple RNAs from the same pre-mRNA. AS has been investigated in a variety of clinical and pathological studies, such as the transcriptome regulation in cancer. In human, recent works based on massive RNA sequencing indicate that >95 % of pre-mRNAs are processed to yield multiple transcripts. Given the biological relevance of AS, several computational efforts have been done leading to the implementation of novel algorithms and specific specialized databases. Here we describe the web application ASPicDB that allows the recovery of detailed biological information about the splicing mechanism. ASPicDB provides powerful querying systems to interrogate AS events at gene, transcript, and protein levels. Finally, ASPicDB includes web visualization instruments to browse and export results for further off-line analyses.
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Acknowledgments
This work was supported by the Italian Ministero dell’Istruzione, Università e Ricerca (MIUR): PRIN 2009 and 2010 and Consiglio Nazionale delle Ricerche: Flagship Project Epigen, Medicina Personalizzata and Aging Program 2012–2014.
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D’Antonio, M., Castrgnanò, T., Pallocca, M., D’Erchia, A.M., Picardi, E., Pesole, G. (2015). ASPicDB: A Database Web Tool for Alternative Splicing Analysis. In: Picardi, E. (eds) RNA Bioinformatics. Methods in Molecular Biology, vol 1269. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-2291-8_23
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DOI: https://doi.org/10.1007/978-1-4939-2291-8_23
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