ncRNA-Class Web Tool: Non-coding RNA Feature Extraction and Pre-miRNA Classification Web Tool

Dimitrios Kleftogiannis (1) , Konstantinos Theofilatos (2) , Stergios Papadimitriou (3) , Athanasios Tsakalidis (2) , Spiros Likothanassis (2) , Seferina Mavroudi (2, 4)

1 Computer, Electrical and Mathematical Sciences and Engineering Division [Thuwal]
2 Department of Computer Engineering and Informatics [Patras]
3 Information Management Department [Kavala]
4 University of Patras

Until recently, it was commonly accepted that most genetic information is transacted by proteins. Recent evidence suggests that the majority of the genomes of mammals and other complex organisms are in fact transcribed into non-coding RNAs (ncRNAs), many of which are alternatively spliced and/or processed into smaller products. Non coding RNA genes analysis requires the calculation of several sequential, thermodynamical and structural features. Many independent tools have already been developed for the efficient calculation of such features but to the best of our knowledge there does not exist any integrative approach for this task. The most significant amount of existing work is related to the miRNA class of non-coding RNAs. MicroRNAs (miRNAs) are small non-coding RNAs that play a significant role in gene regulation and their prediction is a challenging bioinformatics problem. Non-coding RNA feature extraction and pre-miRNA classification Web Tool (ncRNA-class Web Tool) is a publicly available web tool (http://150.140.142.24:82/Default.aspx) which provides a user friendly and efficient environment for the effective calculation of a set of 58 sequential, thermodynamical and structural features of non-coding RNAs, plus a tool for the accurate prediction of miRNAs.

Mots clés: ncRNAs; miRNA; feature calculation; miRNA prediction; web tool

Domaines: Informatique [cs]

Dimitrios Kleftogiannis, Konstantinos Theofilatos, Stergios Papadimitriou, Athanasios Tsakalidis, Spiros Likothanassis, et al.. ncRNA-Class Web Tool: Non-coding RNA Feature Extraction and Pre-miRNA Classification Web Tool. 8th International Conference on Artificial Intelligence Applications and Innovations (AIAI), Sep 2012, Halkidiki, Greece. pp.632-641, ⟨10.1007/978-3-642-33412-2_65⟩. ⟨hal-01523071⟩