Search results for: Joost M. Woltering

2 Screen of MicroRNA Targets in Zebrafish Using Heterogeneous Data Sources: A Case Study for Dre-miR-10 and Dre-miR-196

Authors: Yanju Zhang, Joost M. Woltering, Fons J. Verbeek

Abstract:

It has been established that microRNAs (miRNAs) play an important role in gene expression by post-transcriptional regulation of messengerRNAs (mRNAs). However, the precise relationships between microRNAs and their target genes in sense of numbers, types and biological relevance remain largely unclear. Dissecting the miRNA-target relationships will render more insights for miRNA targets identification and validation therefore promote the understanding of miRNA function. In miRBase, miRanda is the key algorithm used for target prediction for Zebrafish. This algorithm is high-throughput but brings lots of false positives (noise). Since validation of a large scale of targets through laboratory experiments is very time consuming, several computational methods for miRNA targets validation should be developed. In this paper, we present an integrative method to investigate several aspects of the relationships between miRNAs and their targets with the final purpose of extracting high confident targets from miRanda predicted targets pool. This is achieved by using the techniques ranging from statistical tests to clustering and association rules. Our research focuses on Zebrafish. It was found that validated targets do not necessarily associate with the highest sequence matching. Besides, for some miRNA families, the frequency of their predicted targets is significantly higher in the genomic region nearby their own physical location. Finally, in a case study of dre-miR-10 and dre-miR-196, it was found that the predicted target genes hoxd13a, hoxd11a, hoxd10a and hoxc4a of dre-miR- 10 while hoxa9a, hoxc8a and hoxa13a of dre-miR-196 have similar characteristics as validated target genes and therefore represent high confidence target candidates.

Keywords: MicroRNA targets validation, microRNA-target relationships, dre-miR-10, dre-miR-196.

Procedia APA BibTeX Chicago EndNote Harvard JSON MLA RIS XML ISO 690 PDF Downloads 1936

1 Styling Influence to the Loyalty for Knowledge Sharing on WikID

Authors: Regine W. Vroom, Bart Bleijerveld, Joost Schulze

Abstract:

WikID is a wiki for industrial design engineers. An important aspect for the viability of a wiki is the loyalty of the user community to share their information and knowledge by adding this knowledge to the wiki. For the initiators of a wiki it is therefore important to use every aspect to stimulate the user community to actively participate. In this study the focus is on the styling of the website. The central question is: How could the WikID website be visually designed to achieve a user experience which will incite the user to actively participate in the WikID community? After a literature study on the influencing factors of a website, a new interface has been designed by applying the rules found, in order to expand this website-s active user community. An online questionnaire regarding the old or the new website gave insights in the opinions of users. As expected, the new website was rated more positively than the old website. However, the differences are limited.

Keywords: Industrial Design Engineering Knowledge, Wiki, Stimulate Knowledge Sharing, Influence of a wiki styling to thewillingness of users to participate.

Procedia APA BibTeX Chicago EndNote Harvard JSON MLA RIS XML ISO 690 PDF Downloads 1901