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김동혁
Kim, Donghyuk

김동혁

에너지화학공학과

  • Systems Biology and Machine Learning Lab.
  • Website
Research Interests
Systems Biology;Machine Learning;Metabolic engineering;NGS;시스템생물학;머신러닝;대사공학;차세대염기서열분석법
Lab Description
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.
Researcher ID Research Gate ORCiD Scopus Google Scholar
Previous
Redefining HexR regulatory landscape in Pseudomonas putida KT2440 through integrative systems biology File

Nong, Linh Khanh , Sathesh-Prabu, Chandran , Lee, Sung Kuk , Kim, Donghyuk

Article Issue Date2026-03 View53
Genome-wide regulon of NtrC reveals genetic regulation under nitrogen limitation in Methylomonas sp. DH-1 File File

Han, Sukjae , Park, Joon Young , Han, Yong Hee , Bang, Ina , Mun, Hyeonwoo , Lee, Ok Kyung , Hyung, Ji Sung , Na, Jeong-Geol , Yeol, Eun Yeol , Kim, Donghyuk , et al

Article Issue Date2026-01 View26
Integrated Tn-seq and MAGE-assisted rapid genome engineering targeting in Escherichia coli File

Hwang, Jaeseong , Han, Yonghee , Bang, Ina , Park, Joon-young , Kim, Donghyuk , Sung, Junyeong , Seo, Sang Woo , Jang, Sungho , Jung, Gyoo Yeol

Article Issue Date2025-11 View31
Interfacial chemistry-driven reaction dynamics and resultant microstructural evolution in lithium-based all-solid-state batteries File

Park, Chanhyun , Choi, Jingyu , Park, Seojoung , Kim, Hyeong-Jong , Kim, Yunseo , Lim, Gukhyun , Lee, Juho , Lee, Eunryeol , Jo, Sugeun , Kim, Jiwon , et al

Article Issue Date2025-10 View52
Dasineura asteriae Reprograms the Flower Gene Expressions of Vegetative Organs to Create Flower-Like Gall in Aster scaber File File

Boo, Kyung-Hwan , Oh, Young Kyoung , Moller, Christian , Lee, Doseung , Jeon, Gyeong Lyong , Kim, Donghyuk , Burow, Meike , Grosskinsky, Dominik Kilian , Kim, Jiwon , Ryu, Moon Young , et al

Article Issue Date2025-08 View52
Biosensor-guided evolution boosts itaconic acid production, unveiling unique insights into the stringent response File

Moon, Jo Hyun , Woo, Jihoon , Park, Joon Young , Noh, Myung Hyun , Kim, Donghyuk , Jung, Gyoo Yeol

Article Issue Date2025-06 View156
Deep learning-guided structural analysis of a novel bacteriophage KPP105 against multidrug-resistant Klebsiella pneumoniae File

Ko, Seyoung , Kim, Jaehyung , Cho, Jae-Hyun , Kim, Youngju , Kim, Donghyuk

Article Issue Date2025-05 View116
Metabolic Engineering of Corynebacterium glutamicum for High-Level Production of 1,5-Pentanediol, a C5 Diol Platform Chemical File

Sohn, Yu Jung , Hwang, Se-Yeun , Lee, Haeyoung , Jeon, Subeen , Park, Ji Young , Kim, Jaehyung , Kim, Donghyuk , Jeong, Ki Jun , Lee, Sang Yup , Joo, Jeong Chan , et al

Article Issue Date2025-03 View137
Characterization and therapeutic potential of newly isolated bacteriophages against Staphylococcus species in bovine mastitis File File

Cho, Jae-hyun , Lee, Gyumin , Ko, Seyoung , Kim, Youngju , Kim, Donghyuk

Article Issue Date2025-03 View23
ChIP-mini: a low-input ChIP-exo protocol for elucidating DNA-binding protein dynamics in intracellular pathogens File

Park, Joon Young , Jang, Minchang , Choi, Eunna , Lee, Sang-Mok , Bang, Ina , Woo, Jihoon , Kim, Seonggyu , Lee, Eun-Jin , Kim, Donghyuk

Article Issue Date2025-02 View66
Deep learning for NAD/NADP cofactor prediction and engineering using transformer attention analysis in enzymes File

Kim, Jaehyung , Woo, Jihoon , Park, Joon Young , Kim, Kyung-Jin , Kim, Donghyuk

Article Issue Date2025-01 View199
Developing the PIP-eco: An integrated genomic pipeline for identification and characterization of Escherichia coli pathotypes encompassing hybrid forms File

Ko, Seyoung , Nguyen, Huynh Minh Triet , Lee, Woojung , Kim, Donghyuk

Article Issue Date2024-12 View180
An Optimized Method for Reconstruction of Transcriptional Regulatory Networks in Bacteria Using ChIP-exo and RNA-seq Datasets File

Jang, Minchang , Park, Joon Young , Lee, Gayeon , Kim, Donghyuk

Article Issue Date2024-12 View138
Unveiling the novel regulatory roles of RpoD-family sigma factors in Salmonella Typhimurium heat shock response through systems biology approaches File

Park, Joon Young , Jang, Minchang , Lee, Sang-Mok , Woo, Jihoon , Lee, Eun-Jin , Kim, Donghyuk

Article Issue Date2024-10 View165
Behavioral biometric optical tactile sensor for instantaneous decoupling of dynamic touch signals in real time File File

Son, Changil , Kim, Jinyoung , Kang, Dongwon , Park, Seojoung , Ryu, Chaeyeong , Baek, Dahye , Jeong, Geonyoung , Jeong, Sanggyun , Ahn, Seonghyeon , Lim, Chanoong , et al

Article Issue Date2024-09 View223
Use of acetate as substrate for sustainable production of homoserine and threonine by Escherichia coli W3110: A modular metabolic engineering approach File

Vo, Toan Minh , Park, Joon Young , Kim, Donghyuk , Park, Sunghoon

Article Issue Date2024-07 View154
Blanket antimicrobial resistance gene database with structural information, BOARDS, provides insights on historical landscape of resistance prevalence and effects of mutations in enzyme structure File File

Ko, Seyoung , Kim, Jaehyung , Lim, Jaewon , Lee, Sang-Mok , Park, Joon Young , Woo, Jihoon , Scott-Nevros, Zoe K. , Kim, Jong R. , Yoon, Hyunjin , Kim, Donghyuk

Article Issue Date2024-01 View185
Experimental promoter identification of a foodborne pathogen Salmonella enterica subsp. enterica serovar Typhimurium with near single base-pair resolution File

Lee, Sang-Mok , Le, Hoa Thi , Taizhanova, Assiya , Nong, Linh Khanh , Park, Joon Young , Lee, Eun-Jin , Palsson, Bernhard O. , Kim, Donghyuk

Article Issue Date2024-01 View164
Pan-genome Analysis Reveals Comparative Genomic Features of Central Metabolic Pathways in Methylorubrum extorquens File

Lee, Gyu Min , Scott-, NevrosZoe K. , Lee, Sang-Mok , Kim, Donghyuk

Article Issue Date2023-12 View140
A deep learning-based framework for battery reusability verification: one-step state-of-health estimation of pack and constituent modules using a generative algorithm and graphical representation File

Park, Seojoung , Lim, Dongjun , Lee, Hyunjun , Jung, Dawoon , Choi, YunSeok , Lim, Hankwon , Kim, Donghyuk

Article Issue Date2023-11 View297
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