Background: High throughput technologies have provided the scientic community an unprecedented opportunity for large-scale analysis of genomes. Non-coding RNAs (ncRNAs), for a long time believed to be non-functional, are emerging as one of the most important and large family of gene regulators and key elements for genome maintenance. Functional studies have been able to assign to ncRNAs a wide spectrum of functions in primary biological processes, and for this reason they are assuming a growing importance as a potential new family of cancer therapeutic targets. Nevertheless, the number of functionally characterized ncRNAs is still too poor if compared to the number of new discovered ncRNAs. Thus platforms able to merge information from available resources addressing data integration issues are necessary and still insucient to elucidate ncRNAs biological roles. Results: In this paper, we describe a platform called Arena-Idb for the retrieval of comprehensive and non-redundant annotated ncRNAs interactions. Arena-Idb provides a framework for network reconstruction of ncRNA heterogeneous interactions (i.e., with other type of molecules) and relationships with human diseases which guide the integration of data, extracted from dierent sources, via mapping of entities and minimization of ambiguity. Conclusions: Arena-Idb provides a schema and a visualization system to integrate ncRNA interactions that assists in discovering ncRNA functions through the extraction of heterogeneous interaction networks. The Arena-Idb is available at http://arenaidb.ba.itb.cnr.it Keywords: Non-coding RNA; Database; Network; Data integration

Arena-Idb: a platform to build human non-coding RNA interaction networks / Bonnici, Vincenzo; De Caro, Giorgio; Constantino, Giorgio; Liuni, Sabino; D'Elia, Domenica; Bombieri, Nicola; Licciulli, Flavio; Giugno, Rosalba. - In: BMC BIOINFORMATICS. - ISSN 1471-2105. - 19:(2018), pp. 30.1-30.13. [10.1186/s12859-018-2298-8]

Arena-Idb: a platform to build human non-coding RNA interaction networks

Vincenzo Bonnici;
2018

Abstract

Background: High throughput technologies have provided the scientic community an unprecedented opportunity for large-scale analysis of genomes. Non-coding RNAs (ncRNAs), for a long time believed to be non-functional, are emerging as one of the most important and large family of gene regulators and key elements for genome maintenance. Functional studies have been able to assign to ncRNAs a wide spectrum of functions in primary biological processes, and for this reason they are assuming a growing importance as a potential new family of cancer therapeutic targets. Nevertheless, the number of functionally characterized ncRNAs is still too poor if compared to the number of new discovered ncRNAs. Thus platforms able to merge information from available resources addressing data integration issues are necessary and still insucient to elucidate ncRNAs biological roles. Results: In this paper, we describe a platform called Arena-Idb for the retrieval of comprehensive and non-redundant annotated ncRNAs interactions. Arena-Idb provides a framework for network reconstruction of ncRNA heterogeneous interactions (i.e., with other type of molecules) and relationships with human diseases which guide the integration of data, extracted from dierent sources, via mapping of entities and minimization of ambiguity. Conclusions: Arena-Idb provides a schema and a visualization system to integrate ncRNA interactions that assists in discovering ncRNA functions through the extraction of heterogeneous interaction networks. The Arena-Idb is available at http://arenaidb.ba.itb.cnr.it Keywords: Non-coding RNA; Database; Network; Data integration
Arena-Idb: a platform to build human non-coding RNA interaction networks / Bonnici, Vincenzo; De Caro, Giorgio; Constantino, Giorgio; Liuni, Sabino; D'Elia, Domenica; Bombieri, Nicola; Licciulli, Flavio; Giugno, Rosalba. - In: BMC BIOINFORMATICS. - ISSN 1471-2105. - 19:(2018), pp. 30.1-30.13. [10.1186/s12859-018-2298-8]
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Utilizza questo identificativo per citare o creare un link a questo documento: https://hdl.handle.net/11381/2901629
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