NRC-IIT Bioinformatics Website |
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The following projects are currently under development in the NRC-IIT Bioinformatics Laboratory.
The projects are developed in collaboration with various institutes and universities and the
access to some project webpages may be restricted for the general public .
The Microarray Manual Curation Tool (MMCT) is a web-based application that provides visual insights into microarray probe and target sequence hybridizations. The tool provides the means to explore the quality of individual probes on various microarray chipsets (currently only Affymetrix data is available) by performing computational free energy DNA duplex hybridization estimations for each probe and consecutive sub-sequences of user-specified length taken along a prespecified target. The free energy estimations are performed with the PairFold package publicly available at http://www.rnasoft.ca.
Reference: Tulpan,D., Belliveau,L., Leger,S., "The microarray manual curation tool (MMCT): A Webserver for microarray probe evaluations", Bioinformation, 4(8):344-346 (2010). [PDF]
This project is a continuing collaboration with Brinkman Laboratory from Simon Fraser University. The Gene Order Browser facilitates the interrogation of human and mouse gene order data generated using an in-house algorithm. The tool generates two types of layouts: a chromosome-level dot plot, which provides the user with a high-level view of large conserved gene blocks between human and mouse chromosomes and a more detailed gene-level layout of the genomic regions surrounding a pair of orthologous genes. A simplified version of the Gene Order Browser has been integrated in InnateDB - a knowledge resource for innate immunity interactions and pathways.
