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Kim, Donghyuk (김동혁)

Department
School of Energy and Chemical Engineering(에너지화학공학과)
Website
https://sites.google.com/view/systemskimlab
Lab
Systems Biology and Machine Learning Lab. (시스템생물학 머신러닝 실험실)
Research Keywords
시스템생물학, 머신러닝, 대사공학, 차세대염기서열분석법, Systems Biology, Machine Learning, Metabolic engineering, NGS
Research Interests
The research areas of Systems Biology and Machine Learning Lab are primarily based on the systems biology and machine learning approaches and their applications to study - Transcriptional regulation of bacterial pathogens including Salmonella and E. coli- Characterization of high-value bacterial strains- Anti-microbial resistance- Machine learning approaches for biological information
We have been applying the systems biology approaches to study bacteria, but there are also collaborators who expect us to apply those approaches to other types of organisms including yeast, fungi, and human cells.
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Issue DateTitleAuthor(s)TypeViewAltmetrics
2017-01Rice pectin methylesterase inhibitor28 (OsPMEI28) encodes a functional PMEI and its overexpression results in a dwarf phenotype through increased pectin methylesterification levelsHong Phuong Nguyen; Jeong, Ho Young; Jeon, Seung Ho, et alARTICLE514 Rice pectin methylesterase inhibitor28 (OsPMEI28) encodes a functional PMEI and its overexpression results in a dwarf phenotype through increased pectin methylesterification levels
2016-10Multi-omic data integration enables discovery of hidden biological regularitiesEbrahim, Ali; Brunk, Elizabeth; Tan, Justin, et alARTICLE625 Multi-omic data integration enables discovery of hidden biological regularities
2015-08Genome-wide Reconstruction of OxyR and SoxRS Transcriptional Regulatory Networks under Oxidative Stress in Escherichia coli K-12 MG1655Seo, Sang Woo; Kim, Donghyuk; Szubin, Richard, et alARTICLE609 Genome-wide Reconstruction of OxyR and SoxRS Transcriptional Regulatory Networks under Oxidative Stress in Escherichia coli K-12 MG1655
2015-08Systems biology definition of the core proteome of metabolism and expression is consistent with high-throughput dataYang, Laurence; Tan, Justin; O'Brien, Edward J., et alARTICLE654 Systems biology definition of the core proteome of metabolism and expression is consistent with high-throughput data
2015-08Decoding genome-wide GadEWX-transcriptional regulatory networks reveals multifaceted cellular responses to acid stress in Escherichia coliSeo, Sang Woo; Kim, Donghyuk; O'Brien, Edward J., et alARTICLE688 Decoding genome-wide GadEWX-transcriptional regulatory networks reveals multifaceted cellular responses to acid stress in Escherichia coli
2014-09Deciphering Fur transcriptional regulatory network highlights its complex role beyond iron metabolism in Escherichia coliSeo, Sang Woo; Kim, Donghyuk; Latif, Haythem, et alARTICLE794 Deciphering Fur transcriptional regulatory network highlights its complex role beyond iron metabolism in Escherichia coli
2014-04Determining the Control Circuitry of Redox Metabolism at the Genome-ScaleFederowicz, Stephen; Kim, Donghyuk; Ebrahim, Ali, et alARTICLE632 Determining the Control Circuitry of Redox Metabolism at the Genome-Scale
2014-01Genome-scale reconstruction of the sigma factor network in Escherichia coli: topology and functional statesCho, Byung-Kwan; Kim, Donghyuk; Knight, Eric M., et alARTICLE564 Genome-scale reconstruction of the sigma factor network in Escherichia coli: topology and functional states
2013-06Structural Systems Biology Evaluation of Metabolic Thermotolerance in Escherichia coliChang, Roger L.; Andrews, Kathleen; Kim, Donghyuk, et alARTICLE643 Structural Systems Biology Evaluation of Metabolic Thermotolerance in Escherichia coli
2012-11Multiple-omic data analysis of Klebsiella pneumoniae MGH 78578 reveals its transcriptional architecture and regulatory featuresSeo, Joo-Hyun; Hong, Jay Sung-Joong; Kim, Donghyuk, et alARTICLE605 Multiple-omic data analysis of Klebsiella pneumoniae MGH 78578 reveals its transcriptional architecture and regulatory features
2012-08Comparative Analysis of Regulatory Elements between Escherichia coli and Klebsiella pneumoniae by Genome-Wide Transcription Start Site ProfilingKim, Donghyuk; Hong, Jay Sung-Joong; Qiu, Yu, et alARTICLE623 Comparative Analysis of Regulatory Elements between Escherichia coli and Klebsiella pneumoniae by Genome-Wide Transcription Start Site Profiling
2012-08Network Context and Selection in the Evolution to Enzyme SpecificityNam, Hojung; Lewis, Nathan E.; Lerman, Joshua A., et alARTICLE644 Network Context and Selection in the Evolution to Enzyme Specificity
2011-08The PurR regulon in Escherichia coli K-12 MG1655Cho, Byung-Kwan; Federowicz, Stephen A.; Embree, Mallory, et alARTICLE596 The PurR regulon in Escherichia coli K-12 MG1655
2009-04Functional links between clustered microRNAs: suppression of cell-cycle inhibitors by microRNA clusters in gastric cancerKim, Young-Kook; Yu, Jieun; Han, Tae Su, et alARTICLE654 Functional links between clustered microRNAs: suppression of cell-cycle inhibitors by microRNA clusters in gastric cancer

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