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Comparative genomic workflow

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4 Author(s)
Rajapakse, J.C. ; Bioinf. Res. Center, Nanyang Technol. Univ., Singapore, Singapore ; Pooja ; Chunxi Chen ; Sy-Loi Ho

This article describes a workflow for identifying conserved patterns in noncoding regions of vertebrate genomes, with an intention of investigating possible functions of the conserved regions. The annotations of genomes are collected from the Ensembl database. The sequences are then arranged to use for sequence alignment with basic local alignment search tool Z (BLASTZ) [10], which finds gap- free alignments of at least q% identity and I b/s in length. All the conserved noncoding regions identified are stored in a relational database. An user-friendly Web interface provides easy access to conserved regions and related information and visualization capabilities.

Published in:

Engineering in Medicine and Biology Magazine, IEEE  (Volume:28 ,  Issue: 4 )

Date of Publication:

July-Aug. 2009

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