Identification of novel anti-angiogenic factors by in silico functional gene screening method

• Published in: Journal of biotechnology Vol. 105; no. 1; pp. 51 - 60
• Main Authors: Lee, Seok-Ki, Choi, Yong S., Cha, Jaehyuk, Moon, Eun-Joung, Lee, Sae-Won, Bae, Moon-Kyoung, Sohn, Tae-Kwon, Won, Youjip, Ma, Sangback, Bae Kong, Eun, Lee, Hwangu, Lim, Sangteak, Chang, Daejin, Kim, Yung-Jin, Woo Kim, Chul, Zhang, Byoung-Tak, Kim, Kyu-Won
• Format: Journal Article
• Language: English
• Published: Lausanne Elsevier B.V 09.10.2003; Amsterdam Elsevier; New York, NY
• Subjects: Angiogenesis; Angiogenesis Inducing Agents - antagonists & inhibitors; Binding Sites; Biological and medical sciences; Biotechnology; Cells, Cultured; Chromosomal localization; chromosome 19; chromosome 5; Chromosome Mapping - methods; Computational Biology; Computer Simulation; Databases, Nucleic Acid; Databases, Protein; Fundamental and applied biological sciences. Psychology; Gene screening; Humans; Promoter Regions, Genetic; Spectrin - pharmacology; Transcription factor; Transcription Factors - physiology; Troponin T - pharmacology; Chromosomal localization; Angiogenesis; Transcription factor; Gene screening; Screening; Angiogenic factor; Gene; Identification; Method; Localization
• ISSN: 0168-1656; 1873-4863
• DOI: 10.1016/S0168-1656(03)00183-4

Angiogenesis, the formation of new blood vessels out of pre-existing capillaries, occurs in a variety of pathophysiological conditions, and is regulated by a balance of angiogenic activators and inhibitors. To identify novel angiogenic factors, we developed a gene screening method by combining the prediction analysis of transcription factor (TF) binding site and the chromosomal localization analysis. First, we analyzed the promoter sequences from known angiogenesis-related factors using the matinspector program in TRANSFAC database. Interestingly, we found that the binding site of LMO2 complex is highly conserved in the promoter regions of these factors. Second, we analyzed chromosome loci based on the hypothesis that angiogenesis-related factors might be co-localized in a specific chromosomal band. We found that angiogenesis-related factors are localized in specific 14 chromosomal bands including 5q31 and 19q13 using AngioDB and LocusLink database mining. From these two approaches, we identified 32 novel candidates that have the LMO2 complex binding site in their promoter and are located on one of 14 chromosomal bands. Among them, human recombinant troponin T and spectrin markedly inhibited the neovascularization in vivo and in vitro. Collectively, we suggest that the combination of the prediction analysis of TF binding site and the chromosomal localization analysis might be a useful strategy for gene screening of angiogenesis.