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Bhak, Jong
KOrean GenomIcs Center(KOGIC)
Research Interests
  • Geromics, genomics, bioinformatics, protein Engineering, OMICS

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BioCovi: A Visualization Service for Comparative Genomics Analysis

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Title
BioCovi: A Visualization Service for Comparative Genomics Analysis
Other Titles
BioCovi: A visualization service for comparative genomics analysis
Author
Bhak, JongPark, Dae-UiLee, Jung-Sul
Keywords
analytic method; Archaebacterium; article; cell function; eukaryote; molecular evolution; prediction; priority journal; prokaryote; protein family; protein localization; protein protein interaction; protein structure; species comparison; species diversity; algorithm; chromosome map; comparative study; computer program; evaluation; genetics; metabolism; methodology; physiology; protein analysis; sequence alignment; sequence analysis; signal transduction; structure activity relation
Issue Date
2005-06
Publisher
한국유전체학회
Citation
GENOMICS & INFORMATICS, v.3, no.2, pp.52 - 54
Abstract
Motivation: Many genomes have been completely sequenced. However, detecting and analyzing their protein-protein interactions by experimental methods such as co-immunoprecipitation, tandem affinity purification and Y2H is not as fast as genome sequencing. Therefore, a computational prediction method based on the known protein structural interactions will be useful to analyze large-scale protein-protein interaction rules within and among complete genomes. Results: We confirmed that all the predicted protein family interactomes (the full set of protein family interactions within a proteome) of 146 species are scale-free networks, and they share a small core network comprising 36 protein families related to indispensable cellular functions. We found two fundamental differences among prokaryotic and eukaryotic interactomes: (1) eukarya had significantly more hub families than archaea and bacteria and (2) certain special hub families determined the topology of the eukaryotic interactomes. Our comparative analysis suggests that a very small number of expansive protein families led to the evolution of interactomes and seemed tohave played a key role in species diversification.
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ISSN
1598-866X
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BME_Journal Papers
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