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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
2021-03Genomic diversity of Mycobacterium avium subsp. paratuberculosis: pangenomic approach for highlighting unique genomic features with newly constructed complete genomesLim, Jaewon; Park, Hong-Tae; Ko, Seyoung, et alARTICLE33 Genomic diversity of Mycobacterium avium subsp. paratuberculosis: pangenomic approach for highlighting unique genomic features with newly constructed complete genomes
2021-03Alpha-2-Macroglobulin as a New Promising Biomarker Improving the Diagnostic Sensitivity of Bovine ParatuberculosisPark, Hyun-Eui; Park, Jin-Sik; Park, Hong-Tae, et alARTICLE27 Alpha-2-Macroglobulin as a New Promising Biomarker Improving the Diagnostic Sensitivity of Bovine Paratuberculosis
2020-12Genome-wide identification of DNA-protein interaction to reconstruct bacterial transcription regulatory networkPark, Joon Young; Rimal, Hemraj; Bang, Ina, et alARTICLE166 Genome-wide identification of DNA-protein interaction to reconstruct bacterial transcription regulatory network
2020-11Adaptive laboratory evolution of Escherichia coli lacking cellular byproduct formation for enhanced acetate utilization through compensatory ATP consumptionSeong, Wonjae; Han, Gui Hwan; Lim, Hyun Seung, et alARTICLE33 Adaptive laboratory evolution of Escherichia coli lacking cellular byproduct formation for enhanced acetate utilization through compensatory ATP consumption
2020-11Systems evaluation reveals novel transporter YohJK renders 3-hydroxypropionate tolerance in Escherichia coliThuan Phu Nguyen-Vo; Ko, Seyoung; Ryu, Huichang, et alARTICLE50 Systems evaluation reveals novel transporter YohJK renders 3-hydroxypropionate tolerance in Escherichia coli
2020-10Comparative Genome Analysis Reveals Natural Variations in the Genomes of Erwinia pyrifoliae, a Black Shoot Blight Pathogen in Apple and PearLee, Gyu Min; Ko, Seyoung; Oh, Eom-Ji, et alARTICLE52 Comparative Genome Analysis Reveals Natural Variations in the Genomes of Erwinia pyrifoliae, a Black Shoot Blight Pathogen in Apple and Pear
2020-09Unlocking the biosynthesis of sesquiterpenoids from methane via the methylerythritol phosphate pathway in methanotrophic bacteria, using alpha-humulene as a model compoundAnh Duc Nguyen; Kim, Donghyuk; Lee, Eun YeolARTICLE32 Unlocking the biosynthesis of sesquiterpenoids from methane via the methylerythritol phosphate pathway in methanotrophic bacteria, using alpha-humulene as a model compound
2020-08Metabolic engineering of Escherichia coli for 2,3-butanediol production from cellulosic biomass by using glucose-inducible gene expression systemSathesh-Prabu, Chandran; Kim, Donghyuk; Lee, Sung KukARTICLE212 Metabolic engineering of Escherichia coli for 2,3-butanediol production from cellulosic biomass by using glucose-inducible gene expression system
2020-06Genomic and phenotypic characterization of a lytic bacteriophage CF1 infecting the multi-drug resistant bacterium Citrobacter freundiiKim, Youngju; Ko, Seyoung; Yeon, Young Eun, et alARTICLE139 Genomic and phenotypic characterization of a lytic bacteriophage CF1 infecting the multi-drug resistant bacterium Citrobacter freundii
2020-06Metabolic role of pyrophosphate-linked phosphofructokinasepfkfor C1 assimilation inMethylotuvimicrobium alcaliphilum20ZNguyen, Anh Duc; Nam, Gayoung; Kim, Donghyuk, et alARTICLE89 Metabolic role of pyrophosphate-linked phosphofructokinasepfkfor C1 assimilation inMethylotuvimicrobium alcaliphilum20Z
2020-03Comprehensive Genome Analysis on the Novel Species Sphingomonas panacis DCY99(T) Reveals Insights into Iron Tolerance of GinsengKim, Yeon-Ju; Park, Joon Young; Balusamy, Sri Renukadevi, et alARTICLE204 Comprehensive Genome Analysis on the Novel Species Sphingomonas panacis DCY99(T) Reveals Insights into Iron Tolerance of Ginseng
2020-03Functional cooperation of the glycine synthase-reductase and Wood–Ljungdahl pathways for autotrophic growth of Clostridium drakeiSong, Yoseb; Lee, Jin Soo; Shin, Jongoh, et alARTICLE124 Functional cooperation of the glycine synthase-reductase and Wood–Ljungdahl pathways for autotrophic growth of Clostridium drakei
2020-03Genome sequence of the potential probiotic eukaryote Saccharomyces cerevisiae KCCM 51299Hwang, Junsang; Bang, Ina; Kim, Donghyuk, et alARTICLE92 Genome sequence of the potential probiotic eukaryote Saccharomyces cerevisiae KCCM 51299
2020-01Genome-scale evaluation of core one-carbon metabolism in gammaproteobacterial methanotrophs grown on methane and methanolNguyen, Anh Duc; Park, Joon Young; Hwang, In Yeub, et alARTICLE139 Genome-scale evaluation of core one-carbon metabolism in gammaproteobacterial methanotrophs grown on methane and methanol
2020-01Prevalence of extended-spectrum beta-lactamases in the local farm environment and livestock: challenges to mitigate antimicrobial resistanceLee, Shinyoung; Mir, Raies A.; Park, Si Hong, et alARTICLE151 Prevalence of extended-spectrum beta-lactamases in the local farm environment and livestock: challenges to mitigate antimicrobial resistance
2019-12The Escherichia coli transcriptome mostly consists of independently regulated modulesSastry, Anand, V; Gao, Ye; Szubin, Richard, et alARTICLE133 The Escherichia coli transcriptome mostly consists of independently regulated modules
2019-10Photoluminescent And Self-Assembled Hyaluronic Acid-Zinc Oxide-Ginsenoside Rh2 Nanoparticles And Their Potential Caspase-9 Apoptotic Mechanism Towards Cancer Cell LinesKim, Yeon Ju; Perumalsamy, Haribalan; Castro-Aceituno, Veronica, et alARTICLE202 Photoluminescent And Self-Assembled Hyaluronic Acid-Zinc Oxide-Ginsenoside Rh2 Nanoparticles And Their Potential Caspase-9 Apoptotic Mechanism Towards Cancer Cell Lines
2019-07Fermentation product with new equol-producing Lactobacillus paracasei as a probiotic-like product candidate for prevention of skin and intestinal disorderKwon, Jeong Eun; Lim, Jaewon; Bang, Ina, et alARTICLE306 Fermentation product with new equol-producing Lactobacillus paracasei as a probiotic-like product candidate for prevention of skin and intestinal disorder
2019-07Cellular responses to reactive oxygen species are predicted from molecular mechanismsYang, Laurence; Mih, Nathan; Anand, Amitesh, et alARTICLE191 Cellular responses to reactive oxygen species are predicted from molecular mechanisms
2019-02Genomic Characterization of a Newly Isolated Rhizobacteria Sphingomonas panacis Reveals Plant Growth Promoting Effect to RiceKim, Yeon-Ju; Lim, Jaewon; Sukweenadhi, Johan, et alARTICLE233 Genomic Characterization of a Newly Isolated Rhizobacteria Sphingomonas panacis Reveals Plant Growth Promoting Effect to Rice

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