title: Application of Biostatistics and Bioinformatics Tools to Identify Putative Transcription Factor-Gene Regulatory Network of Ankylosing Spondylitis and Sarcoidosis.
abstract: Transcription factors and corresponding cis-regulatory elements are considered key components in gene regulation. We combined biostatistics and bioinformatics tools to streamline identification of putative transcription factor-gene regulatory networks unique for two immune-mediated diseases, ankylosing spondylitis and sarcoidosis. After identifying differentially expressed genes from microarrays, we employed tightCluster to find tight clusters of potentially co-regulated genes. By subsequently applying bioinformatics tools to search for common cis-regulatory elements, putative transcription factor-gene regulatory networks were found. Recognition of these networks by applying this methodology could pave the way for new insights into disease pathogenesis.
authors.affiliation: Division of Biostatistics, Department of Public Health & Preventive Medicine, Oregon Health & Science University, Portland, OR 97239, USA.
authors.forename: Dongseok
authors.initials: D
authors.lastname: Choi
authors.forename: Srilakshmi M
authors.initials: SM
authors.lastname: Sharma
authors.forename: Sirichai
authors.initials: S
authors.lastname: Pasadhika
authors.forename: Zhixin
authors.initials: Z
authors.lastname: Kang
authors.forename: Christina A
authors.initials: CA
authors.lastname: Harrington
authors.forename: Justine R
authors.initials: JR
authors.lastname: Smith
authors.forename: Stephen R
authors.initials: SR
authors.lastname: Planck
authors.forename: James T
authors.initials: JT
authors.lastname: Rosenbaum