Comparative genomic workflow

Author(s)
Rajapakse, Jagath; Pooja; Chen, Chunxi; Ho, Sy-Loi
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Abstract
his 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.
Date issued
2009-07
URI
http://hdl.handle.net/1721.1/60264
Department
Massachusetts Institute of Technology. Department of Biological Engineering
Journal
IEEE Engineering in Medicine and Biology Magazine
Publisher
Institute of Electrical and Electronics Engineers
Citation
Rajapakse, J. et al. “Comparative genomic workflow.” Engineering in Medicine and Biology Magazine, IEEE 28.4 (2009): 19-24. ©2009 IEEE.
Version: Final published version
Other identifiers
INSPEC Accession Number: 10781332
ISSN
0739-5175
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