Abstract
In recent years, many articles studying microRNA (miRNA) molecules and their connection to diseases have been published. However, the wide range of literature in life sciences, raises a barrier in extracting useful information from them. MirPub is a search engine that resolves this issue, providing lists of articles related to particular miRNA terms and useful filters to customise them. In this work, we extend mirPub by utilising publication ranking methods to provide insights about the importance of each publication. Moreover, we automatically identify the species referred to in each publication to serve researchers studying particular species.
This is a preview of subscription content, log in via an institution.
Buying options
Tax calculation will be finalised at checkout
Purchases are for personal use only
Learn about institutional subscriptionsNotes
- 1.
- 2.
MEDLINE’s eLink API was used to collect citations.
- 3.
References
Carthew, R.W.: Gene regulation by microRNAs. Curr. Opin. Genet. Dev. 16(2), 203–208 (2006)
Hwang, W., Chae, S., Kim, S., Woo, G.: Yet another paper ranking algorithm advocating recent publications. In: Proceedings of the 19th International Conference on World Wide Web, pp. 1117–1118. ACM (2010)
Kozomara, A., Griffiths-Jones, S.: miRBase: annotating high confidence microRNAs using deep sequencing data. Nucleic Acids Res. 42, D68–D73 (2013). doi:10.1093/nar/gkt1181
Page, L., et al.: Pagerank: bringing order to the web, Stanford Digital Libraries Working Paper, vol. 72 (1997)
Vergoulis, T., et al.: mirPub: a database for searching microRNA publications. Bioinformatics 31, 1502–1504 (2014). doi:10.1093/bioinformatics/btu819
Vlachos, I.S., et al.: DIANA-TarBase v7. 0: indexing more than half a million experimentally supported miRNA: mRNA interactions. Nucleic Acids Res. 43(D1), D153–D159 (2015)
Xie, B., Ding, Q., Han, H., Wu, D.: miRCancer: a microRNA-cancer association database constructed by text mining on literature. Bioinformatics 29(5), 638–644 (2013). doi:10.1093/bioinformatics/btt014
Zar, J.H.: Spearman rank correlation. In: Armitage, P., Colton, T. (eds.) Encyclopedia of Biostatistics. Wiley, Chichester (1998)
Zhang, L., et al.: Genomic and epigenetic alterations deregulate microrna expression in human epithelial ovarian cancer. Proc. Nat. Acad. Sci. USA 105(19), 7004–7009 (2008)
Acknowledgements
This work was performed in the framework of MEDA project within GSRT’s KRIPIS action, funded by Greece and the European Regional Development Fund of the European Union under the O.P. Competitiveness and Entrepreneurship, NSRF 2007–2013 and the Regional Operational Program of ATTIKI.
Author information
Authors and Affiliations
Corresponding author
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2015 Springer International Publishing Switzerland
About this paper
Cite this paper
Kanellos, I. et al. (2015). MirPub v2: Towards Ranking and Refining miRNA Publication Search Results. In: Kapidakis, S., Mazurek, C., Werla, M. (eds) Research and Advanced Technology for Digital Libraries. TPDL 2015. Lecture Notes in Computer Science(), vol 9316. Springer, Cham. https://doi.org/10.1007/978-3-319-24592-8_34
Download citation
DOI: https://doi.org/10.1007/978-3-319-24592-8_34
Published:
Publisher Name: Springer, Cham
Print ISBN: 978-3-319-24591-1
Online ISBN: 978-3-319-24592-8
eBook Packages: Computer ScienceComputer Science (R0)